3896 lines
114 KiB
C
Executable File
3896 lines
114 KiB
C
Executable File
/********************************************************************
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* Obiview functions *
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********************************************************************/
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/**
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* @file obiview.c
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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* @date 16 December 2015
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* @brief Obiview functions.
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*/
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#include <stdlib.h>
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#include <stdio.h>
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#include <stdbool.h>
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#include <fcntl.h>
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#include <sys/mman.h>
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#include <inttypes.h>
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#include <math.h>
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//#include <ctype.h>
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#include "obiview.h"
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#include "obidms.h"
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#include "obidmscolumn.h"
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#include "obidmscolumn_idx.h"
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#include "obidmscolumn_blob.h"
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#include "obidmscolumn_bool.h"
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#include "obidmscolumn_char.h"
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#include "obidmscolumn_float.h"
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#include "obidmscolumn_int.h"
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#include "obidmscolumn_qual.h"
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#include "obidmscolumn_seq.h"
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#include "obidmscolumn_str.h"
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#include "obidmscolumn_array.h"
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#include "obierrno.h"
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#include "obidebug.h"
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#include "obilittlebigman.h"
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#include "hashtable.h"
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#include "linked_list.h"
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#include "utils.h"
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#include "obiblob.h"
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#include "libjson/json_utils.h"
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#define DEBUG_LEVEL 0 // TODO has to be defined somewhere else (cython compil flag?)
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/**************************************************************************
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*
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* D E C L A R A T I O N O F T H E P R I V A T E F U N C T I O N S
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*
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**************************************************************************/
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/**
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* Internal function building the file name where the informations about a finished, read-only obiview are stored.
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*
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* @warning The returned pointer has to be freed by the caller.
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*
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* @param view_name The name of the view.
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*
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* @returns A pointer to the file name.
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* @retval NULL if an error occurred.
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*
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* @since June 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* build_obiview_file_name(const char* view_name);
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/**
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* Internal function building the file name where the informations about an unfinished, writable obiview are stored.
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*
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* @warning The returned pointer has to be freed by the caller.
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*
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* @param view_name The name of the view.
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*
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* @returns A pointer to the file name.
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* @retval NULL if an error occurred.
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*
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* @since February 2017
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* build_unfinished_obiview_file_name(const char* view_name);
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/**
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* Internal function checking if a view is finished.
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*
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* @param dms The DMS.
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* @param view_name The name of the view.
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*
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* @retval 1 if the view is finished.
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* @retval 0 if the view is not finished.
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* @retval -1 if the view does not exist or if an error occurred.
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*
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* @since October 2018
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int view_is_finished(OBIDMS_p dms, const char* view_name);
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/**
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* Internal function calculating the initial size of the file where the informations about an obiview are stored.
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*
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* @returns The initial size of the file in bytes, rounded to a multiple of page size.
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*
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* @since June 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static size_t get_platform_view_file_size(void);
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/**
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* @brief Internal function enlarging a view file.
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*
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* @param view A pointer on the view.
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* @param new_size The new size needed, in bytes (not necessarily rounded to a page size multiple).
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since August 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int enlarge_view_file(Obiview_p view, size_t new_size);
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/**
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* @brief Internal function creating a file containing all the informations on a view.
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*
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* The file is named with the name of the view.
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*
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* @param dms The DMS to which the view belongs.
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* @param view_name The name of the view.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since June 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int create_obiview_file(OBIDMS_p dms, const char* view_name);
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/**
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* @brief Internal function to update the column references of a view.
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*
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* The column references stored in the mapped view infos structures are updated
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* to match the columns opened in the opened view structure.
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*
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* @warning The column pointer array should be up to date before using this function.
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* @warning Aliases are not updated by this function and have to be edited separately.
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* This function simply reads the column pointer array associated with the view
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* and fills the column names and versions in the column reference array accordingly,
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* without touching the alias.
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* That means that for example if there is a shift in the column pointer array, this
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* function should not be used.
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*
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* @param view A pointer on the view.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since June 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int update_column_refs(Obiview_p view);
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/**
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* @brief Internal function creating the column dictionary associated with a view.
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*
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* The column dictionary is built from the column references array, and associates each column alias
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* with the pointer on the column.
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*
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* @warning The column reference array and the column pointer array should be up to date before using this function.
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*
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* @param view A pointer on the view.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int create_column_dict(Obiview_p view);
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/**
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* @brief Internal function updating the column dictionary associated with a view.
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*
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* The column dictionary is built from the column references array, and associates each column alias
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* with the pointer on the column.
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*
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* @warning The column reference array and the column pointer array should be up to date before using this function.
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*
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* @param view A pointer on the view.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int update_column_dict(Obiview_p view);
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/**
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* @brief Internal function updating the column reference array and the column dictionary associated with a view.
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*
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* The column reference array is updated from the column pointer array, then the column dictionary that
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* and associates each column alias with the pointer on the column is updated from the column reference array.
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*
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* @warning The column pointer array should be up to date before using this function.
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* @warning Aliases are not updated by this function and have to be edited separately.
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* This function simply reads the column pointer array associated with the view
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* and fills the column names and versions in the column reference array accordingly,
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* without touching the alias.
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* That means that for example if there is a shift in the column pointer array, this
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* function should not be used.
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*
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* @param view A pointer on the view.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int update_column_refs_and_dict(Obiview_p view);
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/**
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* @brief Internal function to update the line count in the context of a view.
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*
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* All columns of the view are enlarged to contain at least the new line count.
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*
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* @warning The view must be writable.
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*
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* @param view A pointer on the view.
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* @param line_count The new line count.
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*
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* @returns A value indicating the success of the operation.
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since February 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int update_lines(Obiview_p view, index_t line_count);
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/**
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* @brief Internal function to clone a column in the context of a view.
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*
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* Clones with the right line selection and replaces the cloned columns with the new ones in the view.
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* If there is a line selection, all columns have to be cloned, otherwise only the column of interest is cloned.
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*
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* @param view A pointer on the view.
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* @param column_name The name of the column in the view that should be cloned.
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*
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* @returns A pointer on the new column.
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* @retval NULL if an error occurred.
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*
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* @since February 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static OBIDMS_column_p clone_column_in_view(Obiview_p view, const char* column_name);
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/**
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* @brief Saves a view, updating its informations in the view file.
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*
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* @warning The view must be writable.
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*
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* @param view A pointer on the view.
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*
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* @returns A value indicating the success of the operation.
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since February 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int save_view(Obiview_p view);
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/**
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* @brief Rename a view file once the view is finished, replacing the '*.obiview_unfinished' extension with '*.obiview'.
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*
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* @param view A pointer on the view.
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*
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* @returns A value indicating the success of the operation.
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since February 2017
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int rename_finished_view(Obiview_p view);
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/**
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* @brief Finishes a view: check the predicates, save all the informations, rename the view file.
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*
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* @param view A pointer on the view.
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*
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* @returns A value indicating the success of the operation.
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since February 2017
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int finish_view(Obiview_p view);
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/**
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* @brief Closes an opened view.
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*
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* @warning Doesn't save the view.
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*
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* @param view A pointer on the view.
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*
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* @returns A value indicating the success of the operation.
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @see obi_save_and_close_view()
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* @since February 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int close_view(Obiview_p view);
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/**
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* @brief Internal function preparing to set a value in a column, in the context of a view.
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*
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* The function checks that the view is not read-only, clones the column or all columns if needed,
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* and updates the line count if needed.
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*
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* @param view The view.
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* @param column_pp A pointer on the pointer on the column, to allow replacing the column if it is cloned.
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* @param line_nb_p A pointer on the index of the line that will be modified, to allow replacing it if needed.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since April 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int prepare_to_set_value_in_column(Obiview_p view, OBIDMS_column_p* column_pp, index_t* line_nb_p);
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/**
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* @brief Internal function preparing to get a value from a column, in the context of a view.
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*
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* The function checks that the line index is not beyond the current line count of the view,
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* and modifies it if there is a line selection associated with the view.
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*
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* @param view The view.
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* @param line_nb_p A pointer on the index of the line, to allow replacing it if needed.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if an error occurred.
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*
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* @since April 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int prepare_to_get_value_from_column(Obiview_p view, index_t* line_nb_p);
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/****** PREDICATE FUNCTIONS *******/
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/**
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* @brief Internal function checking if a view has a NUC_SEQUENCE_COLUMN column.
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*
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* The function checks that the view has a column with the name attributed to obligatory
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* nucleotide sequence columns.
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*
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* @param view The view.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_has_nuc_sequence_column(Obiview_p view);
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/**
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* @brief Internal function checking if a view has a QUALITY_COLUMN column.
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*
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* The function checks that the view has a column with the name attributed to obligatory
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* quality columns.
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*
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* @param view The view.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_has_quality_column(Obiview_p view);
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/**
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* @brief Internal function checking if a view has a ID_COLUMN column.
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*
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* The function checks that the view has a column with the name attributed to obligatory
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* id columns.
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*
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* @param view The view.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_has_id_column(Obiview_p view);
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/**
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* @brief Internal function checking if a view has a DEFINITION_COLUMN column.
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*
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* The function checks that the view has a column with the name attributed to obligatory
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* definition columns.
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*
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* @param view The view.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_has_definition_column(Obiview_p view);
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/**
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* @brief Internal function checking that all the quality columns of a view and their associated sequence columns
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* correspond properly:
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* - when a line is defined for either column, it must also be defined for the other column
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* - when a line is defined, the lengths of the sequence and of the quality must be equal
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*
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* @param view The view.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_check_qual_match_seqs(Obiview_p view);
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/**
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* @brief Internal function checking one predicate function on a view.
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*
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* @param view The view.
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* @param predicate_function The predicate function to use.
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*
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* @returns A character string describing the predicate.
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* @retval NULL if the predicate is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static char* view_check_one_predicate(Obiview_p view, char* (*predicate_function)(Obiview_p view));
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/**
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* @brief Internal function checking all the predicates associated with a view.
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*
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* @param view The view.
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* @param write Whether the verified predicates should be written in the view comments.
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*
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* @retval 0 if the operation was successfully completed.
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* @retval -1 if at least one of the predicates is false or if there was an error.
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*
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* @since July 2016
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* @author Celine Mercier (celine.mercier@metabarcoding.org)
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*/
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static int view_check_all_predicates(Obiview_p view, bool write);
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/************************************************************************
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*
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* D E F I N I T I O N O F T H E P R I V A T E F U N C T I O N S
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*
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************************************************************************/
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static char* build_obiview_file_name(const char* view_name)
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{
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char* file_name;
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// Build file name
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file_name = (char*) malloc((strlen(view_name) + 8 + 1)*sizeof(char));
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if (file_name == NULL)
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{
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obi_set_errno(OBI_MALLOC_ERROR);
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obidebug(1, "\nError allocating memory for a view file name");
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return NULL;
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}
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if (sprintf(file_name, "%s.obiview", view_name) < 0)
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{
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obi_set_errno(OBIVIEW_ERROR);
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obidebug(1, "\nProblem building an obiview file name");
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return NULL;
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}
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return file_name;
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}
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|
|
|
|
|
static char* build_unfinished_obiview_file_name(const char* view_name)
|
|
{
|
|
char* file_name;
|
|
|
|
// Build file name
|
|
file_name = (char*) malloc((strlen(view_name) + 19 + 1)*sizeof(char));
|
|
if (file_name == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view file name");
|
|
return NULL;
|
|
}
|
|
if (sprintf(file_name, "%s.obiview_unfinished", view_name) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nProblem building an unfinished obiview file name");
|
|
return NULL;
|
|
}
|
|
|
|
return file_name;
|
|
}
|
|
|
|
|
|
static int view_is_finished(OBIDMS_p dms, const char* view_name)
|
|
{
|
|
struct dirent* dp;
|
|
char* file_name;
|
|
|
|
// Check finished views
|
|
// Create file name
|
|
file_name = build_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, file_name) == 0)
|
|
{
|
|
free(file_name);
|
|
return true;
|
|
}
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Check unfinished views
|
|
// Create file name
|
|
file_name = build_unfinished_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, file_name) == 0)
|
|
{
|
|
free(file_name);
|
|
return false;
|
|
}
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
return -1;
|
|
}
|
|
|
|
|
|
static size_t get_platform_view_file_size()
|
|
{
|
|
size_t obiview_size;
|
|
size_t rounded_obiview_size;
|
|
double multiple;
|
|
|
|
obiview_size = sizeof(Obiview_infos_t);
|
|
|
|
multiple = ceil((double) (obiview_size) / (double) getpagesize());
|
|
|
|
rounded_obiview_size = multiple * getpagesize();
|
|
|
|
return rounded_obiview_size;
|
|
}
|
|
|
|
|
|
static int enlarge_view_file(Obiview_p view, size_t new_size)
|
|
{
|
|
int obiview_file_descriptor;
|
|
double multiple;
|
|
size_t rounded_new_size;
|
|
char* file_name;
|
|
|
|
// Create file name
|
|
file_name = build_unfinished_obiview_file_name((view->infos)->name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
// Open view file
|
|
obiview_file_descriptor = openat((view->dms)->view_dir_fd, file_name, O_RDWR, 0777);
|
|
if (obiview_file_descriptor < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError opening a view file");
|
|
free(file_name);
|
|
return -1;
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Round new size to a multiple of page size // TODO make function in utils
|
|
multiple = ceil((double) new_size / (double) getpagesize());
|
|
rounded_new_size = multiple * getpagesize();
|
|
|
|
// Enlarge the file
|
|
if (ftruncate(obiview_file_descriptor, rounded_new_size) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError enlarging a view file");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
// Unmap and remap the file
|
|
if (munmap(view->infos, (view->infos)->file_size) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError munmapping a view file when enlarging");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
view->infos = mmap(NULL,
|
|
rounded_new_size,
|
|
PROT_READ | PROT_WRITE,
|
|
MAP_SHARED,
|
|
obiview_file_descriptor,
|
|
0
|
|
);
|
|
if (view->infos == MAP_FAILED)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError re-mmapping a view file after enlarging the file");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
// Set new size
|
|
(view->infos)->file_size = rounded_new_size;
|
|
|
|
if (close(obiview_file_descriptor) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError closing a view file");
|
|
return -1;
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int create_obiview_file(OBIDMS_p dms, const char* view_name)
|
|
{
|
|
char* file_name;
|
|
int obiview_file_descriptor;
|
|
size_t file_size;
|
|
|
|
// Create file name
|
|
file_name = build_unfinished_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
// Create file
|
|
obiview_file_descriptor = openat(dms->view_dir_fd, file_name, O_RDWR | O_CREAT | O_EXCL, 0777);
|
|
if (obiview_file_descriptor < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError creating an obiview file");
|
|
free(file_name);
|
|
return -1;
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Truncate file to the initial size
|
|
file_size = get_platform_view_file_size();
|
|
|
|
if (ftruncate(obiview_file_descriptor, file_size) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError truncating an obiview file to the right size");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
// Write file size
|
|
if (write(obiview_file_descriptor, &file_size, sizeof(size_t)) < ((ssize_t) sizeof(size_t)))
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError writing the file size in an obiview file");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
if (close(obiview_file_descriptor) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError closing a view file");
|
|
return -1;
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int update_column_refs(Obiview_p view)
|
|
{
|
|
int i;
|
|
OBIDMS_column_p column;
|
|
|
|
for (i=0; i < (view->infos)->column_count; i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view");
|
|
return -1;
|
|
}
|
|
strcpy(((((view->infos)->column_references)[i]).column_refs).column_name, (column->header)->name);
|
|
((((view->infos)->column_references)[i]).column_refs).version = (column->header)->version;
|
|
}
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int create_column_dict(Obiview_p view)
|
|
{
|
|
int i;
|
|
OBIDMS_column_p* column_pp;
|
|
|
|
view->column_dict = ht_create(MAX_NB_OPENED_COLUMNS);
|
|
if (view->column_dict == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError creating a column dictionary");
|
|
return -1;
|
|
}
|
|
|
|
// Rebuild the dictionary from the column references and the column pointer array associated with the view
|
|
for (i=0; i < (view->infos)->column_count; i++)
|
|
{
|
|
// Check that each alias is unique
|
|
if (ht_get(view->column_dict, (((view->infos)->column_references)[i]).alias) != NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError: the name/alias identifying a column in a view is not unique: %s", (((view->infos)->column_references)[i]).alias);
|
|
return -1;
|
|
}
|
|
|
|
column_pp = (OBIDMS_column_p*) ll_get(view->columns, i);
|
|
if (column_pp == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view when creating a column dictionary");
|
|
return -1;
|
|
}
|
|
|
|
if (ht_set(view->column_dict, (((view->infos)->column_references)[i]).alias, column_pp) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding a column in a column dictionary");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int update_column_dict(Obiview_p view)
|
|
{
|
|
// Re-initialize the dictionary to rebuild it from scratch
|
|
ht_free(view->column_dict);
|
|
|
|
if (create_column_dict(view) < 0)
|
|
return -1;
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int update_column_refs_and_dict(Obiview_p view)
|
|
{
|
|
if (update_column_refs(view) < 0)
|
|
return -1;
|
|
return update_column_dict(view);
|
|
}
|
|
|
|
|
|
static int update_lines(Obiview_p view, index_t line_count)
|
|
{
|
|
int i;
|
|
OBIDMS_column_p column;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to update the line count of all columns in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view when updating view lines");
|
|
return -1;
|
|
}
|
|
|
|
// Clone the column first if needed
|
|
if (!(column->writable))
|
|
{
|
|
column = clone_column_in_view(view, (((view->infos)->column_references)[i]).alias);
|
|
if (column == NULL)
|
|
{
|
|
obidebug(1, "\nError cloning a column in a view when updating its line count");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
// Enlarge the column if needed
|
|
while (line_count > (column->header)->line_count)
|
|
{
|
|
if (obi_enlarge_column(column) < 0)
|
|
return -1;
|
|
}
|
|
|
|
// Set the number of lines used to the new view line count
|
|
(column->header)->lines_used = line_count;
|
|
}
|
|
|
|
(view->infos)->line_count = line_count;
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static OBIDMS_column_p clone_column_in_view(Obiview_p view, const char* column_name)
|
|
{
|
|
int i;
|
|
OBIDMS_column_p column = NULL;
|
|
OBIDMS_column_p new_column = NULL;
|
|
OBIDMS_column_p column_buffer;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to delete a column in a read-only view");
|
|
return NULL;
|
|
}
|
|
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
if ((view->line_selection != NULL) || (!strcmp((((view->infos)->column_references)[i]).alias, column_name)))
|
|
{ // Clone with the right line selection and replace (for all columns if there is a line selection)
|
|
|
|
// Save pointer to close column after cloning
|
|
column_buffer = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column_buffer == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column to clone from the linked list of column pointers of a view");
|
|
return NULL;
|
|
}
|
|
|
|
// Clone and replace the column in the view
|
|
column = obi_clone_column(view->dms, view->line_selection, (column_buffer->header)->name, (column_buffer->header)->version, true);
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError cloning a column to replace in a view");
|
|
return NULL;
|
|
}
|
|
|
|
// Change the pointer in the linked list of column pointers
|
|
if (ll_set(view->columns, i, column) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError changing the column pointer of a cloned column in the linked list of column pointers of a view");
|
|
return NULL;
|
|
}
|
|
|
|
// Close old cloned column
|
|
obi_close_column(column_buffer);
|
|
|
|
if (!strcmp((((view->infos)->column_references)[i]).alias, column_name))
|
|
// Found the column to return
|
|
new_column = column;
|
|
}
|
|
}
|
|
|
|
// Close old line selection
|
|
if (view->line_selection != NULL)
|
|
{
|
|
obi_close_column(view->line_selection);
|
|
view->line_selection = NULL;
|
|
// Update line selection reference
|
|
(((view->infos)->line_selection).column_name)[0] = '\0';
|
|
((view->infos)->line_selection).version = -1;
|
|
}
|
|
|
|
// Update column refs and dict
|
|
if (update_column_refs_and_dict(view) < 0)
|
|
{
|
|
obidebug(1, "\nError updating columns references and dictionary after cloning a column in a view");
|
|
return NULL;
|
|
}
|
|
|
|
return new_column;
|
|
}
|
|
|
|
|
|
static int save_view(Obiview_p view)
|
|
{
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to save a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// Store reference for the line selection associated with that view if there is one
|
|
if (view->line_selection != NULL) // Unnecessary in theory, the line selection references are already saved
|
|
{
|
|
strcpy(((view->infos)->line_selection).column_name, ((view->line_selection)->header)->name);
|
|
((view->infos)->line_selection).version = ((view->line_selection)->header)->version;
|
|
(view->infos)->all_lines = false;
|
|
}
|
|
else // Necessary because line selection could have been deleted if a column was cloned
|
|
{
|
|
(((view->infos)->line_selection).column_name)[0] = '\0';
|
|
((view->infos)->line_selection).version = -1;
|
|
(view->infos)->all_lines = true;
|
|
}
|
|
|
|
if (update_column_refs(view) < 0)
|
|
{
|
|
obidebug(1, "\nError updating column references when saving a view");
|
|
return -1;
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int rename_finished_view(Obiview_p view)
|
|
{
|
|
char* old_name;
|
|
char* new_name;
|
|
char* path_old_name;
|
|
char* path_new_name;
|
|
char* full_path_old_name;
|
|
char* full_path_new_name;
|
|
|
|
old_name = build_unfinished_obiview_file_name((view->infos)->name);
|
|
new_name = build_obiview_file_name((view->infos)->name);
|
|
|
|
path_old_name = malloc(MAX_PATH_LEN);
|
|
path_new_name = malloc(MAX_PATH_LEN);
|
|
|
|
strcpy(path_old_name, "VIEWS/");
|
|
strcat(path_old_name, old_name);
|
|
|
|
strcpy(path_new_name, "VIEWS/");
|
|
strcat(path_new_name, new_name);
|
|
|
|
full_path_old_name = obi_dms_get_full_path(view->dms, path_old_name);
|
|
full_path_new_name = obi_dms_get_full_path(view->dms, path_new_name);
|
|
|
|
if (rename(full_path_old_name, full_path_new_name) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError renaming the file of a finished view: %s", full_path_new_name);
|
|
free(old_name);
|
|
free(new_name);
|
|
return -1;
|
|
}
|
|
|
|
free(old_name);
|
|
free(new_name);
|
|
free(path_new_name);
|
|
free(path_old_name);
|
|
free(full_path_old_name);
|
|
free(full_path_new_name);
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int finish_view(Obiview_p view)
|
|
{
|
|
int i;
|
|
OBIDMS_column_p column;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to save a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// Add count column if it's a NUC_SEQ_VIEW with no count column // TODO discuss
|
|
if ((!strcmp((view->infos)->view_type, VIEW_TYPE_NUC_SEQS)) && (!obi_view_column_exists(view, COUNT_COLUMN)))
|
|
{
|
|
if (obi_create_auto_count_column(view) < 0)
|
|
{
|
|
obidebug(1, "\nError creating an automatic count column when finishing a view");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
// Add id column if it's a NUC_SEQ_VIEW with no id column // TODO discuss
|
|
if ((!strcmp((view->infos)->view_type, VIEW_TYPE_NUC_SEQS)) && (!obi_view_column_exists(view, ID_COLUMN)))
|
|
{
|
|
if (obi_create_auto_id_column(view, NULL) < 0)
|
|
{
|
|
obidebug(1, "\nError creating an automatic id column when finishing a view");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
// Check predicates
|
|
if (view_check_all_predicates(view, true) < 0)
|
|
{
|
|
obidebug(1, "\nView predicates not respected, view rollbacked");
|
|
obi_rollback_view(view); // TODO discuss, maybe never call from C layer
|
|
return -1;
|
|
}
|
|
|
|
if (save_view(view) < 0)
|
|
return -1;
|
|
|
|
// Add the time in the view comments
|
|
time_t t;
|
|
t = time(&t);
|
|
if (obi_view_add_comment(view, "Date created", strtok(ctime(&t), "\n")) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding the date of creation when finishing a view");
|
|
return -1;
|
|
}
|
|
|
|
if (rename_finished_view(view) < 0)
|
|
return -1;
|
|
|
|
// Flag the columns as finished
|
|
for (i=0; i < ((view->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column to flag it as finished when finishing a view");
|
|
return -1;
|
|
}
|
|
if (column->writable)
|
|
(column->header)->finished = true;
|
|
}
|
|
|
|
// Flag the line selection column as finished
|
|
if (view->line_selection != NULL)
|
|
{
|
|
column = view->line_selection;
|
|
if (column->writable)
|
|
(column->header)->finished = true;
|
|
}
|
|
|
|
// Flag the view as finished
|
|
(view->infos)->finished = true;
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int close_view(Obiview_p view)
|
|
{
|
|
int i;
|
|
int ret_value;
|
|
OBIDMS_column_p column;
|
|
|
|
ret_value = 0;
|
|
|
|
for (i=0; i < ((view->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column to close from the linked list of column pointers of a view");
|
|
return -1;
|
|
}
|
|
if (obi_close_column(column) < 0)
|
|
{
|
|
obidebug(1, "\nError closing a column while closing a view");
|
|
ret_value = -1;
|
|
}
|
|
}
|
|
|
|
// Close line selection if there is one
|
|
if (view->line_selection != NULL)
|
|
{
|
|
if (obi_close_column(view->line_selection) < 0)
|
|
{
|
|
obidebug(1, "\nError closing a line selection while closing a view");
|
|
ret_value = -1;
|
|
}
|
|
}
|
|
|
|
// Free the linked list of column pointers
|
|
ll_free(view->columns);
|
|
|
|
// Free the column dictionary
|
|
ht_free(view->column_dict);
|
|
|
|
// Unmap view file
|
|
if (obi_view_unmap_file(view->dms, view->infos) < 0)
|
|
{
|
|
obidebug(1, "\nError unmaping a view file while closing a view");
|
|
ret_value = -1;
|
|
}
|
|
|
|
free(view);
|
|
|
|
return ret_value;
|
|
}
|
|
|
|
|
|
static int prepare_to_set_value_in_column(Obiview_p view, OBIDMS_column_p* column_pp, index_t* line_nb_p)
|
|
{
|
|
int i;
|
|
char* column_name = NULL;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obidebug(1, "\nError trying to set a value in a column in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// If there is a line selection associated with the view or if the column
|
|
// is read-only, all columns or this column respectively must be cloned
|
|
if ((view->line_selection != NULL) || (!((*column_pp)->writable)))
|
|
{
|
|
// Get the name/alias of the column from the pointer
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
if (obi_view_get_column(view, (((view->infos)->column_references)[i]).alias) == *column_pp)
|
|
column_name = (((view->infos)->column_references)[i]).alias;
|
|
}
|
|
if (column_name == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to clone a column in a view: column alias not found from pointer");
|
|
return -1;
|
|
}
|
|
|
|
(*column_pp) = clone_column_in_view(view, column_name);
|
|
if ((*column_pp) == NULL)
|
|
{
|
|
obidebug(1, "\nError trying to clone a column to modify it");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
if (((*line_nb_p)+1) > (view->infos)->line_count)
|
|
{
|
|
if (update_lines(view, ((*line_nb_p)+1)) < 0)
|
|
return -1;
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
static int prepare_to_get_value_from_column(Obiview_p view, index_t* line_nb_p)
|
|
{
|
|
if (((*line_nb_p)+1) > ((view->infos)->line_count))
|
|
{
|
|
obi_set_errno(OBICOL_UNKNOWN_ERROR);
|
|
obidebug(1, "\nError trying to get a value that is beyond the current line count of the view");
|
|
return -1;
|
|
}
|
|
|
|
if (view->line_selection != NULL)
|
|
(*line_nb_p) = *(((index_t*) ((view->line_selection)->data)) + (*line_nb_p));
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
|
|
/****** PREDICATE FUNCTIONS *******/
|
|
|
|
static char* view_has_nuc_sequence_column(Obiview_p view)
|
|
{
|
|
char* predicate;
|
|
|
|
predicate = (char*) malloc((strlen("The view has an associated nucleotide sequence column.") + 1) * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
|
|
strcpy(predicate, "The view has an associated nucleotide sequence column.");
|
|
|
|
if (obi_view_get_column(view, NUC_SEQUENCE_COLUMN) != NULL)
|
|
return predicate;
|
|
else
|
|
{
|
|
obidebug(1, "\nError checking the predicate: %s", predicate);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
|
|
static char* view_has_quality_column(Obiview_p view)
|
|
{
|
|
char* predicate;
|
|
|
|
predicate = (char*) malloc((strlen("The view has an associated sequence quality column.") + 1) * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
|
|
strcpy(predicate, "The view has an associated sequence quality column.");
|
|
|
|
if (obi_view_get_column(view, QUALITY_COLUMN) != NULL)
|
|
return predicate;
|
|
else
|
|
{
|
|
obidebug(1, "\nError checking the predicate: %s", predicate);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
|
|
static char* view_has_id_column(Obiview_p view)
|
|
{
|
|
char* predicate;
|
|
|
|
predicate = (char*) malloc((strlen("The view has an associated identifier column.") + 1) * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
|
|
strcpy(predicate, "The view has an associated identifier column.");
|
|
|
|
if (obi_view_get_column(view, ID_COLUMN) != NULL)
|
|
return predicate;
|
|
else
|
|
{
|
|
obidebug(1, "\nError checking the predicate: %s", predicate);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
|
|
static char* view_has_definition_column(Obiview_p view)
|
|
{
|
|
char* predicate;
|
|
|
|
predicate = (char*) malloc((strlen("The view has an associated definition column.") + 1) * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
|
|
strcpy(predicate, "The view has an associated definition column.");
|
|
|
|
if (obi_view_get_column(view, DEFINITION_COLUMN) != NULL)
|
|
return predicate;
|
|
else
|
|
{
|
|
obidebug(1, "\nError checking the predicate: %s", predicate);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
|
|
static char* view_check_qual_match_seqs(Obiview_p view)
|
|
{
|
|
index_t i, j, k;
|
|
index_t nb_elements_per_line;
|
|
int qual_len;
|
|
const uint8_t* qual;
|
|
char* seq;
|
|
OBIDMS_column_p column;
|
|
OBIDMS_column_p qual_column;
|
|
OBIDMS_column_p seq_column;
|
|
char* predicate;
|
|
bool at_least_one_qual_col;
|
|
|
|
// Go through all columns in the view and check the predicate for all quality columns
|
|
at_least_one_qual_col = false;
|
|
for (i=0; i < ((view->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column to clone from the linked list of column pointers of view %s", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
|
|
// Check if it's a quality column
|
|
if ((column->header)->returned_data_type == OBI_QUAL)
|
|
{
|
|
at_least_one_qual_col = true;
|
|
// Check that the quality arrays match the sequences of the associated column
|
|
qual_column = column;
|
|
seq_column = obi_open_column(view->dms, ((qual_column->header)->associated_column).column_name, ((qual_column->header)->associated_column).version);
|
|
if (seq_column == NULL)
|
|
{
|
|
obidebug(1, "\nError checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
|
|
// Close and reopen indexers to remap them properly, because in writable mode they are mostly unmapped
|
|
if (obi_close_indexer(qual_column->indexer) < 0)
|
|
{
|
|
obidebug(1, "\nError closing the quality indexer when checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
qual_column->indexer = obi_open_avl_group(view->dms, (qual_column->header)->indexer_name);
|
|
if (qual_column->indexer == NULL)
|
|
{
|
|
obidebug(1, "\nError reopening the quality indexer when checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
if (obi_close_indexer(seq_column->indexer) < 0)
|
|
{
|
|
obidebug(1, "\nError closing the sequence indexer when checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
seq_column->indexer = obi_open_avl_group(view->dms, (seq_column->header)->indexer_name);
|
|
if (seq_column->indexer == NULL)
|
|
{
|
|
obidebug(1, "\nError reopening the sequence indexer when checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
|
|
nb_elements_per_line = (qual_column->header)->nb_elements_per_line;
|
|
// Check that the quality and the sequence columns have the same number of elements per line
|
|
if (nb_elements_per_line != (seq_column->header)->nb_elements_per_line)
|
|
{
|
|
obidebug(1, "\nError checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
|
|
// Check each sequence and its quality
|
|
for (j=0; j < (view->infos)->line_count; j++)
|
|
{
|
|
for (k=0; k < nb_elements_per_line; k++)
|
|
{
|
|
qual = obi_get_qual_int_with_elt_idx_and_col_p_in_view(view, qual_column, j, k, &qual_len);
|
|
seq = obi_get_seq_with_elt_idx_and_col_p_in_view(view, seq_column, j, k);
|
|
if ((qual != OBIQual_int_NA) && (seq != OBISeq_NA))
|
|
{
|
|
// Test that the lengths of the quality and the sequence are equal
|
|
if ((size_t)qual_len != strlen(seq))
|
|
{
|
|
obidebug(1, "\nError checking the predicate for view %s: The sequences and sequence quality arrays match (index %lld, seq=%s, quality length = %d).", (view->infos)->name, j, seq, qual_len);
|
|
return NULL;
|
|
}
|
|
}
|
|
// Test if one value is NA and not the other
|
|
else if (((qual == OBIQual_int_NA) && (seq != OBISeq_NA)) || ((qual != OBIQual_int_NA) && (seq == OBISeq_NA)))
|
|
{
|
|
obidebug(1, "\nError checking the predicate for view %s: The sequences and sequence quality arrays match.", (view->infos)->name);
|
|
return NULL;
|
|
}
|
|
free(seq);
|
|
}
|
|
}
|
|
|
|
obi_close_column(seq_column);
|
|
}
|
|
}
|
|
|
|
if (at_least_one_qual_col)
|
|
{
|
|
predicate = (char*) malloc((strlen("The sequences and sequence quality arrays match.") + 1) * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
strcpy(predicate, "The sequences and sequence quality arrays match.");
|
|
}
|
|
else
|
|
{
|
|
predicate = (char*) malloc(1 * sizeof(char));
|
|
if (predicate == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for predicate character string.");
|
|
return NULL;
|
|
}
|
|
strcpy(predicate, "");
|
|
}
|
|
|
|
return predicate;
|
|
}
|
|
|
|
|
|
static char* view_check_one_predicate(Obiview_p view, char* (*predicate_function)(Obiview_p view))
|
|
{
|
|
return predicate_function(view);
|
|
}
|
|
|
|
|
|
static int view_check_all_predicates(Obiview_p view, bool write)
|
|
{
|
|
int i;
|
|
char* predicate = NULL;
|
|
|
|
for (i=0; i < view->nb_predicates; i++)
|
|
{
|
|
// Check predicate
|
|
predicate = view_check_one_predicate(view, (view->predicate_functions)[i]);
|
|
if (predicate == NULL)
|
|
{
|
|
// TODO discuss what to do
|
|
return -1;
|
|
}
|
|
else
|
|
{
|
|
if ((write) && (predicate[0]!='\0'))
|
|
{
|
|
// Add predicate in comments
|
|
if (obi_view_add_comment(view, PREDICATE_KEY, predicate) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding a verified predicate (%s) in the comments of a view.", predicate);
|
|
free(predicate);
|
|
return -1;
|
|
}
|
|
}
|
|
free(predicate);
|
|
}
|
|
}
|
|
return 0;
|
|
}
|
|
|
|
|
|
// TODO predicate function that goes through each line / each elements
|
|
|
|
|
|
/**********************************************************************
|
|
*
|
|
* D E F I N I T I O N O F T H E P U B L I C F U N C T I O N S
|
|
*
|
|
**********************************************************************/
|
|
|
|
|
|
bool obi_view_exists(OBIDMS_p dms, const char* view_name)
|
|
{
|
|
struct dirent* dp;
|
|
char* file_name;
|
|
|
|
// Check finished views
|
|
// Create file name
|
|
file_name = build_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, file_name) == 0)
|
|
{
|
|
free(file_name);
|
|
return true;
|
|
}
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Check unfinished views
|
|
// Create file name
|
|
file_name = build_unfinished_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, file_name) == 0)
|
|
{
|
|
free(file_name);
|
|
return true;
|
|
}
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
return false;
|
|
}
|
|
|
|
|
|
Obiview_p obi_new_view(OBIDMS_p dms, const char* view_name, Obiview_p view_to_clone, index_t* line_selection, const char* comments)
|
|
{
|
|
Obiview_p view;
|
|
int i;
|
|
index_t line_nb;
|
|
OBIDMS_column_p column;
|
|
int comments_ok;
|
|
|
|
// Check that the DMS is a valid pointer
|
|
if (dms == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError creating a view: DMS pointer is NULL");
|
|
return NULL;
|
|
}
|
|
|
|
// Check that the view name pointer is valid
|
|
if (view_name == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError creating a view: view name is NULL");
|
|
return NULL;
|
|
}
|
|
|
|
// Check uniqueness of name
|
|
if (obi_view_exists(dms, view_name))
|
|
{
|
|
obi_set_errno(OBIVIEW_ALREADY_EXISTS_ERROR);
|
|
obidebug(1, "\nName of new view ('%s') already exists", view_name);
|
|
return NULL;
|
|
}
|
|
|
|
// Check that the view name is not 'taxonomy' (used for URIs)
|
|
if (strcmp(view_name, "taxonomy") == 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nView name can not be 'taxonomy'");
|
|
return NULL;
|
|
}
|
|
|
|
// Allocate memory for view structure
|
|
view = (Obiview_p) malloc(sizeof(Obiview_t));
|
|
if (view == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view");
|
|
return NULL;
|
|
}
|
|
|
|
view->dms = dms;
|
|
view->read_only = false;
|
|
|
|
// Create view file
|
|
if (create_obiview_file(dms, view_name) < 0)
|
|
{
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Map view file
|
|
view->infos = obi_view_map_file(dms, view_name, false);
|
|
if (view->infos == NULL)
|
|
{
|
|
obidebug(1, "\nError mapping the informations of a new view");
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Flag the view as being a work in progress
|
|
(view->infos)->finished = false;
|
|
|
|
// Write used size in view file for initial structure
|
|
(view->infos)->used_size = sizeof(Obiview_infos_t);
|
|
|
|
// Clone view to clone if there is one
|
|
if (view_to_clone != NULL)
|
|
{
|
|
if ((view_to_clone->infos)->finished == false)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nA view can not be cloned if it is not finished");
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
// If the view to clone has an associated line selection and there is no new line selection, open the associated line selection
|
|
if ((view_to_clone->line_selection != NULL) && (line_selection == NULL))
|
|
{
|
|
view->line_selection = obi_open_column(dms, ((view_to_clone->line_selection)->header)->name, ((view_to_clone->line_selection)->header)->version);
|
|
if (view->line_selection == NULL)
|
|
{
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
(view->infos)->line_count = (view_to_clone->infos)->line_count;
|
|
}
|
|
// If there is a new line selection, build it by combining it with the one from the view to clone if there is one
|
|
else if (line_selection != NULL)
|
|
{
|
|
view->line_selection = obi_create_column(view->dms, LINES_COLUMN_NAME, OBI_IDX, 0, 1, NULL, false, false, false, NULL, NULL, -1, NULL);
|
|
if ((view->line_selection) == NULL)
|
|
{
|
|
obidebug(1, "\nError creating a column corresponding to a line selection");
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
(view->infos)->all_lines = false;
|
|
(view->infos)->line_count = 0;
|
|
i = 0;
|
|
for (i=0; line_selection[i] != -1; i++)
|
|
{
|
|
line_nb = line_selection[i];
|
|
|
|
if (line_nb > (view_to_clone->infos)->line_count)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to select a line for a new view that is beyond the line count of the view to clone");
|
|
obi_close_column(view->line_selection);
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
if (view_to_clone->line_selection != NULL)
|
|
line_nb = obi_column_get_index_with_elt_idx(view_to_clone->line_selection, line_nb, 0);
|
|
|
|
if (obi_column_set_index_with_elt_idx(view->line_selection, ((view->line_selection)->header)->lines_used, 0, line_nb) < 0)
|
|
{
|
|
obi_close_column(view->line_selection);
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Update view line count
|
|
((view->infos)->line_count)++;
|
|
}
|
|
}
|
|
else // If there is no line selection associated with the view to clone or the new view
|
|
{
|
|
view->line_selection = NULL;
|
|
(view->infos)->all_lines = true;
|
|
(view->infos)->line_count = (view_to_clone->infos)->line_count;
|
|
}
|
|
|
|
// Fill informations
|
|
strcpy((view->infos)->view_type, (view_to_clone->infos)->view_type);
|
|
strcpy((view->infos)->created_from, (view_to_clone->infos)->name);
|
|
}
|
|
|
|
// Else, fill empty view structure
|
|
else
|
|
{
|
|
(view->infos)->column_count = 0;
|
|
(view->infos)->line_count = 0;
|
|
(view->infos)->all_lines = true;
|
|
((view->infos)->created_from)[0] = '\0';
|
|
((view->infos)->view_type)[0] = '\0';
|
|
view->line_selection = NULL;
|
|
view->columns = NULL;
|
|
}
|
|
|
|
// Fill last informations
|
|
strcpy((view->infos)->name, view_name);
|
|
(view->infos)->creation_date = time(NULL);
|
|
|
|
// Fill automatic predicate functions
|
|
view->nb_predicates = 1;
|
|
view->predicate_functions = malloc((view->nb_predicates) * sizeof(char* (*) (Obiview_p)));
|
|
if (view->predicate_functions == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for view predicates");
|
|
return NULL;
|
|
}
|
|
(view->predicate_functions)[0] = view_check_qual_match_seqs;
|
|
|
|
// Write comments
|
|
// Comments must be a json string, even empty
|
|
if ((strcmp(comments, "") == 0) || (comments == NULL))
|
|
comments_ok = obi_view_write_comments(view, "{}");
|
|
else
|
|
comments_ok = obi_view_write_comments(view, comments);
|
|
if (comments_ok < 0)
|
|
{
|
|
obidebug(1, "\nError writing comments when creating a view");
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Add the comment specifying the name of the cloned view if there is one
|
|
if (view_to_clone != NULL)
|
|
{
|
|
if (obi_view_add_comment(view, "Cloned from", (view_to_clone->infos)->name) < 0)
|
|
{
|
|
obidebug(1, "\nError adding comment about cloned view when creating a view");
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
// Store reference for line selection
|
|
if (view->line_selection == NULL)
|
|
{
|
|
(((view->infos)->line_selection).column_name)[0] = '\0';
|
|
((view->infos)->line_selection).version = -1;
|
|
}
|
|
else
|
|
{
|
|
strcpy(((view->infos)->line_selection).column_name, ((view->line_selection)->header)->name);
|
|
((view->infos)->line_selection).version = ((view->line_selection)->header)->version;
|
|
}
|
|
|
|
// Initialize linked list of column pointers
|
|
view->columns = NULL;
|
|
|
|
// Create the column dictionary (hash table) associating column names (or aliases) to column pointers
|
|
if (create_column_dict(view) < 0)
|
|
{
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Once the view has been created with all its elements and informations, add the columns if the view is cloned from another view
|
|
if (view_to_clone != NULL)
|
|
{
|
|
(view->infos)->column_count = 0;
|
|
for (i=0; i<((view_to_clone->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view_to_clone->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view");
|
|
return NULL;
|
|
}
|
|
if (obi_view_add_column(view,
|
|
(column->header)->name,
|
|
(column->header)->version,
|
|
(((view_to_clone->infos)->column_references)[i]).alias,
|
|
0,
|
|
0,
|
|
0,
|
|
NULL,
|
|
false,
|
|
false,
|
|
false,
|
|
NULL,
|
|
NULL,
|
|
-1,
|
|
NULL,
|
|
false)
|
|
< 0)
|
|
{
|
|
obidebug(1, "\nError adding a column in a new view from a view to clone");
|
|
if (view->line_selection != NULL)
|
|
obi_close_column(view->line_selection);
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
}
|
|
}
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
Obiview_p obi_new_view_cloned_from_name(OBIDMS_p dms, const char* view_name, const char* view_to_clone_name, index_t* line_selection, const char* comments)
|
|
{
|
|
Obiview_p view;
|
|
Obiview_p view_to_clone;
|
|
|
|
view_to_clone = obi_open_view(dms, view_to_clone_name);
|
|
if (view_to_clone == NULL)
|
|
return NULL;
|
|
view = obi_new_view(dms, view_name, view_to_clone, line_selection, comments);
|
|
|
|
close_view(view_to_clone);
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
Obiview_p obi_new_view_nuc_seqs(OBIDMS_p dms, const char* view_name, Obiview_p view_to_clone, index_t* line_selection, const char* comments, bool quality_column, bool create_default_columns)
|
|
{
|
|
Obiview_p view;
|
|
OBIDMS_column_p associated_nuc_column;
|
|
int nb_predicates;
|
|
|
|
if (view_to_clone != NULL)
|
|
{ // Check that the view to clone is already a NUC_SEQS view
|
|
if (strcmp((view_to_clone->infos)->view_type, VIEW_TYPE_NUC_SEQS))
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "Trying to clone a non-NUC SEQS view to create a NUC SEQS view");
|
|
return NULL;
|
|
}
|
|
// Check if there is a quality column
|
|
if (obi_view_get_column(view_to_clone, QUALITY_COLUMN) != NULL)
|
|
quality_column = true;
|
|
else
|
|
quality_column = false;
|
|
}
|
|
|
|
view = obi_new_view(dms, view_name, view_to_clone, line_selection, comments);
|
|
if (view == NULL)
|
|
return NULL;
|
|
|
|
strcpy((view->infos)->view_type, VIEW_TYPE_NUC_SEQS);
|
|
|
|
if ((view_to_clone == NULL) && create_default_columns)
|
|
{
|
|
// Adding sequence column
|
|
if (obi_view_add_column(view, NUC_SEQUENCE_COLUMN, -1, NULL, OBI_SEQ, 0, 1, NULL, false, false, false, NULL, NULL, -1, "{}", true) < 0) // discuss using same indexer "NUC_SEQ_INDEXER"
|
|
{
|
|
obidebug(1, "Error adding an obligatory column in a nucleotide sequences view");
|
|
return NULL;
|
|
}
|
|
// Adding id column
|
|
if (obi_view_add_column(view, ID_COLUMN, -1, NULL, OBI_STR, 0, 1, NULL, false, false, false, NULL, NULL, -1, "{}", true) < 0)
|
|
{
|
|
obidebug(1, "Error adding an obligatory column in a nucleotide sequences view");
|
|
return NULL;
|
|
}
|
|
// Adding definition column
|
|
if (obi_view_add_column(view, DEFINITION_COLUMN, -1, NULL, OBI_STR, 0, 1, NULL, false, false, false, NULL, NULL, -1, "{}", true) < 0)
|
|
{
|
|
obidebug(1, "Error adding an obligatory column in a nucleotide sequences view");
|
|
return NULL;
|
|
}
|
|
// Adding quality column
|
|
if (quality_column)
|
|
{
|
|
associated_nuc_column = obi_view_get_column(view, NUC_SEQUENCE_COLUMN);
|
|
if (obi_view_add_column(view, QUALITY_COLUMN, -1, NULL, OBI_QUAL, 0, 1, NULL, false, false, false, NULL, (associated_nuc_column->header)->name, (associated_nuc_column->header)->version, "{}", true) < 0) // TODO discuss automatic association
|
|
{
|
|
obidebug(1, "Error adding an obligatory column in a nucleotide sequences view");
|
|
return NULL;
|
|
}
|
|
}
|
|
}
|
|
|
|
// Add predicate functions specific to the view type
|
|
// TODO macros?
|
|
|
|
// if (quality_column) TODO
|
|
// nb_predicates = view->nb_predicates + 4;
|
|
// else
|
|
nb_predicates = view->nb_predicates + 3;
|
|
|
|
if (view->nb_predicates == 0)
|
|
view->predicate_functions = malloc(nb_predicates * sizeof(char* (*) (Obiview_p)));
|
|
else
|
|
view->predicate_functions = realloc(view->predicate_functions, nb_predicates * sizeof(char* (*) (Obiview_p)));
|
|
|
|
if (view->predicate_functions == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for view predicates");
|
|
return NULL;
|
|
}
|
|
|
|
(view->predicate_functions)[(view->nb_predicates)] = view_has_nuc_sequence_column;
|
|
(view->predicate_functions)[(view->nb_predicates) + 1] = view_has_id_column;
|
|
(view->predicate_functions)[(view->nb_predicates) + 2] = view_has_definition_column;
|
|
// if (quality_column) # TODO discuss. Commented bc for example with obi annotate, clone view so clone predicate, then modify seq, so quality is deleted, and predicate boom
|
|
// (view->predicate_functions)[(view->nb_predicates) + 3] = view_has_quality_column;
|
|
|
|
view->nb_predicates = nb_predicates;
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
Obiview_p obi_new_view_nuc_seqs_cloned_from_name(OBIDMS_p dms, const char* view_name, const char* view_to_clone_name, index_t* line_selection, const char* comments)
|
|
{
|
|
Obiview_p view;
|
|
Obiview_p view_to_clone;
|
|
|
|
view_to_clone = obi_open_view(dms, view_to_clone_name);
|
|
if (view_to_clone == NULL)
|
|
return NULL;
|
|
view = obi_new_view_nuc_seqs(dms, view_name, view_to_clone, line_selection, comments, false, false);
|
|
|
|
close_view(view_to_clone);
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
Obiview_p obi_clone_view(OBIDMS_p dms, Obiview_p view_to_clone, const char* view_name, index_t* line_selection, const char* comments)
|
|
{
|
|
if (view_to_clone == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError: pointer on view to clone is NULL");
|
|
return NULL;
|
|
}
|
|
|
|
if (strcmp((view_to_clone->infos)->view_type, VIEW_TYPE_NUC_SEQS) == 0)
|
|
return obi_new_view_nuc_seqs(dms, view_name, view_to_clone, line_selection, comments, false, false);
|
|
else // Non-typed view
|
|
return obi_new_view(dms, view_name, view_to_clone, line_selection, comments);
|
|
}
|
|
|
|
|
|
Obiview_p obi_clone_view_from_name(OBIDMS_p dms, const char* view_to_clone_name, const char* view_name, index_t* line_selection, const char* comments)
|
|
{
|
|
Obiview_p view;
|
|
Obiview_p view_to_clone;
|
|
|
|
view_to_clone = obi_open_view(dms, view_to_clone_name);
|
|
if (view_to_clone == NULL)
|
|
{
|
|
obidebug(1, "\nError: could not open view to clone");
|
|
return NULL;
|
|
}
|
|
|
|
view = obi_clone_view(dms, view_to_clone, view_name, line_selection, comments);
|
|
|
|
close_view(view_to_clone);
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
Obiview_infos_p obi_view_map_file(OBIDMS_p dms, const char* view_name, bool finished)
|
|
{
|
|
char* file_name;
|
|
Obiview_infos_p view_infos;
|
|
int obiview_file_descriptor;
|
|
size_t file_size;
|
|
int open_flag;
|
|
int mmap_flag;
|
|
|
|
// Create file name
|
|
if (finished)
|
|
file_name = build_obiview_file_name(view_name);
|
|
else
|
|
file_name = build_unfinished_obiview_file_name(view_name);
|
|
if (file_name == NULL)
|
|
return NULL;
|
|
|
|
// Set flags (read-only or not)
|
|
if (finished)
|
|
{
|
|
open_flag = O_RDONLY;
|
|
mmap_flag = PROT_READ;
|
|
}
|
|
else
|
|
{
|
|
open_flag = O_RDWR;
|
|
mmap_flag = PROT_READ | PROT_WRITE;
|
|
}
|
|
|
|
// Open view file
|
|
obiview_file_descriptor = openat(dms->view_dir_fd, file_name, open_flag, 0777);
|
|
if (obiview_file_descriptor < 0)
|
|
{
|
|
if (errno == ENOENT)
|
|
{
|
|
obidebug(1, "\nError opening an obiview file: View %s does not exist", view_name);
|
|
}
|
|
else
|
|
{
|
|
obidebug(1, "\nError opening an obiview file");
|
|
}
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
free(file_name);
|
|
return NULL;
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Get file size
|
|
if (read(obiview_file_descriptor, &file_size, sizeof(size_t)) < ((ssize_t) sizeof(size_t)))
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError reading the file size in an obiview file");
|
|
close(obiview_file_descriptor);
|
|
return NULL;
|
|
}
|
|
|
|
// Map the view infos structure
|
|
view_infos = mmap(NULL,
|
|
file_size,
|
|
mmap_flag,
|
|
MAP_SHARED,
|
|
obiview_file_descriptor,
|
|
0
|
|
);
|
|
if (view_infos == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError mapping an obiview file");
|
|
return NULL;
|
|
}
|
|
|
|
if (close(obiview_file_descriptor) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError closing a view file");
|
|
return NULL;
|
|
}
|
|
|
|
return view_infos;
|
|
}
|
|
|
|
|
|
int obi_view_unmap_file(OBIDMS_p dms, Obiview_infos_p view_infos)
|
|
{
|
|
char* file_name;
|
|
int obiview_file_descriptor;
|
|
size_t file_size;
|
|
|
|
// Get file name
|
|
if (view_infos->finished)
|
|
file_name = build_obiview_file_name(view_infos->name);
|
|
else
|
|
file_name = build_unfinished_obiview_file_name(view_infos->name);
|
|
if (file_name == NULL)
|
|
return -1;
|
|
|
|
// Open view file
|
|
obiview_file_descriptor = openat(dms->view_dir_fd, file_name, O_RDONLY, 0777);
|
|
if (obiview_file_descriptor < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError opening an obiview file (%s) >%s<", file_name, dms->dms_name);
|
|
free(file_name);
|
|
return -1;
|
|
}
|
|
|
|
free(file_name);
|
|
|
|
// Unmap the view infos structure
|
|
file_size = view_infos->file_size;
|
|
if (munmap(view_infos, file_size) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError unmapping an obiview file");
|
|
close(obiview_file_descriptor);
|
|
return -1;
|
|
}
|
|
|
|
if (close(obiview_file_descriptor) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError closing a view file");
|
|
return -1;
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
Obiview_p obi_open_view(OBIDMS_p dms, const char* view_name)
|
|
{
|
|
Obiview_p view;
|
|
const char* column_name;
|
|
obiversion_t column_version;
|
|
OBIDMS_column_p column_pointer;
|
|
int i;
|
|
|
|
// Check that the DMS is a valid pointer
|
|
if (dms == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError opening a view: DMS pointer is NULL");
|
|
return NULL;
|
|
}
|
|
|
|
// Check that the view name pointer is valid
|
|
if (view_name == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError opening a view: view name is NULL");
|
|
return NULL;
|
|
}
|
|
|
|
// Allocate the memory for the view structure
|
|
view = (Obiview_p) malloc(sizeof(Obiview_t));
|
|
if (view == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view");
|
|
return NULL;
|
|
}
|
|
|
|
// Initialize view informations
|
|
view->dms = dms;
|
|
view->read_only = true;
|
|
view->nb_predicates = 0;
|
|
view->predicate_functions = NULL;
|
|
view->columns = NULL;
|
|
|
|
// Map view file
|
|
view->infos = obi_view_map_file(dms, view_name, true);
|
|
if ((view->infos) == NULL)
|
|
{
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
|
|
// Open the line selection associated with the view
|
|
if ((view->infos)->all_lines)
|
|
view->line_selection = NULL;
|
|
else
|
|
{
|
|
view->line_selection = obi_open_column(dms, ((view->infos)->line_selection).column_name, ((view->infos)->line_selection).version);
|
|
if (view->line_selection == NULL)
|
|
{
|
|
obidebug(1, "\nError opening a line selection for a view");
|
|
obi_view_unmap_file(view->dms, view->infos);
|
|
free(view);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
// Open the columns to read
|
|
for (i=0; i < ((view->infos)->column_count); i++)
|
|
{
|
|
column_name = ((((view->infos)->column_references)[i]).column_refs).column_name;
|
|
column_version = ((((view->infos)->column_references)[i]).column_refs).version;
|
|
|
|
column_pointer = obi_open_column(dms, column_name, column_version);
|
|
if (column_pointer == NULL)
|
|
{
|
|
obidebug(1, "\nError opening a column for a view: column %d: %s, version %d", i, column_name, column_version);
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
view->columns = ll_add(view->columns, column_pointer);
|
|
if (view->columns == NULL)
|
|
{
|
|
obidebug(1, "\nError adding a column in the column linked list of a view: column %d: %s, version %d", i, column_name, column_version);
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
}
|
|
|
|
// Create the column dictionary associating each column alias with its pointer
|
|
if (create_column_dict(view) < 0)
|
|
{
|
|
obidebug(1, "\nError creating the column dictionary when opening a view");
|
|
close_view(view);
|
|
return NULL;
|
|
}
|
|
|
|
return view;
|
|
}
|
|
|
|
|
|
// TODO return a pointer on the column?
|
|
int obi_view_add_column(Obiview_p view,
|
|
char* column_name,
|
|
obiversion_t version_number,
|
|
const char* alias,
|
|
OBIType_t data_type,
|
|
index_t nb_lines,
|
|
index_t nb_elements_per_line,
|
|
char* elements_names,
|
|
bool elt_names_formatted,
|
|
bool tuples,
|
|
bool to_eval,
|
|
const char* indexer_name,
|
|
const char* associated_column_name,
|
|
obiversion_t associated_column_version,
|
|
const char* comments,
|
|
bool create) // all infos for creation or open
|
|
{
|
|
int i;
|
|
OBIDMS_column_p column;
|
|
OBIDMS_column_p column_buffer;
|
|
|
|
//for ( ; *column_name; ++column_name) *column_name = tolower(*column_name);
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to add a column in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// If there is a line selection , clone the columns to delete the line selection
|
|
if (create && (view->line_selection != NULL))
|
|
{
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
{ // Clone with the right line selection and replace for all columns
|
|
// Save pointer to close column after cloning
|
|
column_buffer = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column_buffer == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column to clone from the linked list of column pointers of a view");
|
|
return -1;
|
|
}
|
|
|
|
// Clone and replace the column in the view
|
|
column = obi_clone_column(view->dms, view->line_selection, (column_buffer->header)->name, (column_buffer->header)->version, 1);
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError cloning a column to replace in a view");
|
|
return -1;
|
|
}
|
|
|
|
// Change the pointer in the linked list of column pointers
|
|
if (ll_set(view->columns, i, column) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError changing the column pointer of a cloned column in the linked list of column pointers of a view");
|
|
return -1;
|
|
}
|
|
|
|
// Close old cloned column
|
|
obi_close_column(column_buffer);
|
|
}
|
|
}
|
|
|
|
// Close old line selection
|
|
if (view->line_selection != NULL)
|
|
{
|
|
obi_close_column(view->line_selection);
|
|
view->line_selection = NULL;
|
|
// Update line selection reference
|
|
(((view->infos)->line_selection).column_name)[0] = '\0';
|
|
((view->infos)->line_selection).version = -1;
|
|
}
|
|
}
|
|
|
|
// Update the line count if needed
|
|
if (create)
|
|
{
|
|
if ((view->infos)->line_count > nb_lines)
|
|
nb_lines = (view->infos)->line_count;
|
|
else if (nb_lines > (view->infos)->line_count)
|
|
update_lines(view, nb_lines);
|
|
}
|
|
|
|
// Open or create the column
|
|
if (create)
|
|
{ // Create column
|
|
column = obi_create_column(view->dms, column_name, data_type, nb_lines, nb_elements_per_line, elements_names, elt_names_formatted, tuples, to_eval, indexer_name, associated_column_name, associated_column_version, comments);
|
|
if (column == NULL)
|
|
{
|
|
obidebug(1, "\nError creating a column to add to a view");
|
|
return -1;
|
|
}
|
|
(column->header)->lines_used = nb_lines;
|
|
}
|
|
else
|
|
{ // Open column
|
|
column = obi_open_column(view->dms, column_name, version_number);
|
|
if (column == NULL)
|
|
{
|
|
obidebug(1, "\nError opening a column to add to a view: %s, version %d", column_name, version_number);
|
|
return -1;
|
|
}
|
|
// - If there is a line selection:
|
|
// - The column's lines_used attribute must be at least the view's line count
|
|
// - If there is no line selection:
|
|
// - If it's the first column in the view:
|
|
// - The view's line count is set to the column's lines_used attribute
|
|
// - If it's not the first column in the view:
|
|
// - The column's lines_used attribute must be equal to the view's line count
|
|
if ((view->line_selection != NULL) && ((column->header)->lines_used < (view->infos)->line_count))
|
|
{ // - If there is a line selection, the column's lines_used attribute must be at least the view's line count
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding an existing column to a view: the column's lines_used attribute (%lld) must be equal to or greater than the view's line count (%lld)", (column->header)->lines_used, (view->infos)->line_count);
|
|
return -1;
|
|
}
|
|
else if (view->line_selection == NULL)
|
|
{ // If there is no line selection:
|
|
if ((view->infos)->column_count == 0) // If it's the first column in the view:
|
|
(view->infos)->line_count = (column->header)->lines_used; // The view's line count is set to the column's lines_used attribute
|
|
else if ((column->header)->lines_used != (view->infos)->line_count)
|
|
{ // If it's not the first column in the view, the column's lines_used attribute must be equal to the view's line count
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding an existing column to a view: the column's lines_used attribute (%lld) must be equal to the view's line count (%lld)", (column->header)->lines_used, (view->infos)->line_count);
|
|
return -1;
|
|
}
|
|
}
|
|
}
|
|
|
|
// Store column pointer in the view structure
|
|
view->columns = ll_add(view->columns, column);
|
|
if (view->columns == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError adding a column in the linked list of column pointers of a view: column %s, version %d", column_name, version_number);
|
|
return -1;
|
|
}
|
|
|
|
// If an alias is not defined, it's the original name of the column.
|
|
if ((alias == NULL) || (*alias == '\0'))
|
|
alias = column_name;
|
|
|
|
// Save column alias
|
|
strcpy((((view->infos)->column_references)[(view->infos)->column_count]).alias, alias);
|
|
|
|
// Update column count in view
|
|
(view->infos)->column_count++;
|
|
|
|
// Update column references and dictionary
|
|
if (update_column_refs_and_dict(view) < 0)
|
|
{
|
|
obidebug(1, "\nError updating column references and dictionary after adding a column to a view");
|
|
return -1;
|
|
}
|
|
|
|
// Print dict
|
|
// for (i=0; i<((view->infos)->column_count); i++)
|
|
// {
|
|
// fprintf(stderr, "\n\n2305 alias: %s", (((view->infos)->column_references)[i]).alias);
|
|
// fprintf(stderr, "\npointer: %x\n", obi_view_get_column(view, (((view->infos)->column_references)[i]).alias));
|
|
// }
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_view_delete_column(Obiview_p view, const char* column_name, bool delete_file)
|
|
{
|
|
int i;
|
|
bool found;
|
|
OBIDMS_column_p column;
|
|
char* col_to_delete_path;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to delete a column in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
found = false;
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
if ((!found) && (!strcmp((((view->infos)->column_references)[i]).alias, column_name)))
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view when deleting a column from a view");
|
|
return -1;
|
|
}
|
|
// Keep column path if need to delete the file
|
|
if (delete_file)
|
|
{
|
|
col_to_delete_path = obi_column_full_path(view->dms, column->header->name, column->header->version);
|
|
if (col_to_delete_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column file path when deleting a column");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
obi_close_column(column);
|
|
|
|
// Delete file if needed
|
|
if (delete_file)
|
|
{
|
|
if (remove(col_to_delete_path) < 0)
|
|
{
|
|
obi_set_errno(OBICOL_UNKNOWN_ERROR);
|
|
obidebug(1, "\nError deleting a column file when deleting unfinished columns: file %s", col_to_delete_path);
|
|
return -1;
|
|
}
|
|
free(col_to_delete_path);
|
|
}
|
|
|
|
view->columns = ll_delete(view->columns, i);
|
|
// TODO how do we check for error? NULL can be empty list
|
|
found = true;
|
|
}
|
|
if (found)
|
|
{
|
|
if (i != (((view->infos)->column_count) - 1)) // not the last one
|
|
{ // Shift the references
|
|
strcpy((((view->infos)->column_references)[i]).alias, (((view->infos)->column_references)[i+1]).alias);
|
|
strcpy(((((view->infos)->column_references)[i]).column_refs).column_name, ((((view->infos)->column_references)[i+1]).column_refs).column_name);
|
|
((((view->infos)->column_references)[i]).column_refs).version = ((((view->infos)->column_references)[i+1]).column_refs).version;
|
|
}
|
|
else // Last column
|
|
{
|
|
strcpy((((view->infos)->column_references)[i]).alias, "");
|
|
strcpy(((((view->infos)->column_references)[i]).column_refs).column_name, "");
|
|
((((view->infos)->column_references)[i]).column_refs).version = -1;
|
|
}
|
|
}
|
|
}
|
|
|
|
if (!found)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to delete a column: column not found");
|
|
return -1;
|
|
}
|
|
|
|
((view->infos)->column_count)--;
|
|
|
|
// Update column dictionary
|
|
update_column_dict(view);
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
OBIDMS_column_p obi_view_get_column(Obiview_p view, const char* column_name)
|
|
{
|
|
OBIDMS_column_p* column_pp;
|
|
column_pp = (OBIDMS_column_p*)(ht_get(view->column_dict, column_name));
|
|
if (column_pp == NULL)
|
|
return NULL;
|
|
return (*column_pp);
|
|
}
|
|
|
|
|
|
OBIDMS_column_p* obi_view_get_pointer_on_column_in_view(Obiview_p view, const char* column_name)
|
|
{
|
|
return (OBIDMS_column_p*)(ht_get(view->column_dict, column_name));
|
|
}
|
|
|
|
|
|
bool obi_view_column_exists(Obiview_p view, const char* column_name)
|
|
{
|
|
if (obi_view_get_column(view, column_name) == NULL)
|
|
return false;
|
|
else
|
|
return true;
|
|
}
|
|
|
|
|
|
int obi_view_create_column_alias(Obiview_p view, const char* current_name, const char* alias)
|
|
{
|
|
int i;
|
|
bool found;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to change a column alias in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// Check that the new alias is unique
|
|
if (ht_get(view->column_dict, alias) != NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError: the new name/alias identifying a column in a view is not unique");
|
|
return -1;
|
|
}
|
|
|
|
// Set the new alias in the column references
|
|
found = false;
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
if (!strcmp((((view->infos)->column_references)[i]).alias, current_name))
|
|
{
|
|
strcpy((((view->infos)->column_references)[i]).alias, alias);
|
|
found = true;
|
|
}
|
|
}
|
|
|
|
if (found == false)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError: can't find the column '%s' to change its alias", current_name);
|
|
return -1;
|
|
}
|
|
|
|
// Update the column dictionary
|
|
update_column_dict(view);
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_view_write_comments(Obiview_p view, const char* comments)
|
|
{
|
|
size_t new_size;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to write comments in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
if (comments == NULL)
|
|
return 0; // TODO or error? discuss
|
|
|
|
new_size = sizeof(Obiview_infos_t) + strlen(comments) + 1;
|
|
|
|
// Check if the file has to be enlarged
|
|
if (new_size >= (view->infos)->file_size)
|
|
{
|
|
if (enlarge_view_file(view, new_size) < 0)
|
|
return -1;
|
|
}
|
|
|
|
strcpy((view->infos)->comments, comments);
|
|
|
|
(view->infos)->used_size = new_size;
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_view_add_comment(Obiview_p view, const char* key, const char* value)
|
|
{
|
|
char* new_comments = NULL;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to add a comment to a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
new_comments = obi_add_comment((view->infos)->comments, key, value);
|
|
if (new_comments == NULL)
|
|
{
|
|
obidebug(1, "\nError adding a comment to a view, key: %s, value: %s", key, value);
|
|
return -1;
|
|
}
|
|
|
|
if (obi_view_write_comments(view, new_comments) < 0)
|
|
{
|
|
obidebug(1, "\nError adding a comment to a view, key: %s, value: %s", key, value);
|
|
return -1;
|
|
}
|
|
|
|
free(new_comments);
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_save_and_close_view(Obiview_p view)
|
|
{
|
|
// Finish and save the view if it is not read-only
|
|
if ( ! (view->read_only))
|
|
if (finish_view(view) < 0)
|
|
return -1;
|
|
|
|
if (close_view(view) < 0)
|
|
return -1;
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_dms_has_unfinished_views(OBIDMS_p dms)
|
|
{
|
|
struct dirent* dp;
|
|
int i;
|
|
char* full_path;
|
|
char* relative_path;
|
|
Obiview_infos_p view_infos;
|
|
char* view_name;
|
|
int ret_value;
|
|
|
|
ret_value = 0;
|
|
|
|
// Look for unfinished views and delete them
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
i=0;
|
|
while ((dp->d_name)[i] != '.')
|
|
i++;
|
|
relative_path = (char*) malloc(strlen(VIEW_DIR_NAME) + strlen(dp->d_name) + 2);
|
|
strcpy(relative_path, VIEW_DIR_NAME);
|
|
strcat(relative_path, "/");
|
|
strcat(relative_path, dp->d_name);
|
|
full_path = obi_dms_get_full_path(dms, relative_path);
|
|
free(relative_path);
|
|
if (full_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting the full path to a view file when cleaning unfinished views");
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
|
|
if (strcmp((dp->d_name)+i, ".obiview_unfinished") == 0)
|
|
ret_value = 1;
|
|
|
|
else if (strcmp((dp->d_name)+i, ".obiview") == 0)
|
|
{ // Check if the view was properly flagged as finished
|
|
view_name = (char*) malloc((i+1) * sizeof(char));
|
|
if (view_name == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view name when deleting unfinished views: file %s", dp->d_name);
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
strncpy(view_name, dp->d_name, i);
|
|
view_name[i] = '\0';
|
|
view_infos = obi_view_map_file(dms, view_name, true);
|
|
if (view_infos == NULL)
|
|
{
|
|
obidebug(1, "\nError reading a view file when deleting unfinished views: file %s", dp->d_name);
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
if (view_infos->finished == false)
|
|
ret_value = 1;
|
|
}
|
|
}
|
|
|
|
return ret_value;
|
|
}
|
|
|
|
|
|
int obi_clean_unfinished_views(OBIDMS_p dms)
|
|
{
|
|
struct dirent* dp;
|
|
int i;
|
|
char* full_path;
|
|
char* relative_path;
|
|
Obiview_infos_p view_infos;
|
|
char* view_name;
|
|
int ret_value;
|
|
char* to_delete[1000];
|
|
int d;
|
|
|
|
ret_value = 0;
|
|
d = 0;
|
|
|
|
// Look for unfinished views and delete them
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
i=0;
|
|
while ((dp->d_name)[i] != '.')
|
|
i++;
|
|
relative_path = (char*) malloc(strlen(VIEW_DIR_NAME) + strlen(dp->d_name) + 2);
|
|
strcpy(relative_path, VIEW_DIR_NAME);
|
|
strcat(relative_path, "/");
|
|
strcat(relative_path, dp->d_name);
|
|
full_path = obi_dms_get_full_path(dms, relative_path);
|
|
free(relative_path);
|
|
if (full_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting the full path to a view file when cleaning unfinished views");
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
if (strcmp((dp->d_name)+i, ".obiview_unfinished") == 0)
|
|
{
|
|
// Add to the list of files to delete (deleting in loop not safe)
|
|
to_delete[d] = full_path;
|
|
d++;
|
|
}
|
|
else if (strcmp((dp->d_name)+i, ".obiview") == 0)
|
|
{ // Check if the view was properly flagged as finished
|
|
view_name = (char*) malloc((i+1) * sizeof(char));
|
|
if (view_name == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view name when deleting unfinished views: file %s", dp->d_name);
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
strncpy(view_name, dp->d_name, i);
|
|
view_name[i] = '\0';
|
|
view_infos = obi_view_map_file(dms, view_name, true);
|
|
if (view_infos == NULL)
|
|
{
|
|
obidebug(1, "\nError reading a view file when deleting unfinished views: file %s", dp->d_name);
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
if (view_infos->finished == false)
|
|
{
|
|
// Add to the list of files to delete (deleting in loop not safe)
|
|
to_delete[d] = full_path;
|
|
d++;
|
|
}
|
|
}
|
|
}
|
|
|
|
for (i=0; i<d; i++)
|
|
{
|
|
if (remove(to_delete[i]) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError deleting a view file when deleting unfinished views: file %s", to_delete[i]);
|
|
ret_value = -1;
|
|
}
|
|
free(to_delete[i]);
|
|
}
|
|
|
|
return ret_value;
|
|
}
|
|
|
|
|
|
int obi_rollback_view(Obiview_p view)
|
|
{
|
|
int i;
|
|
int ret_value;
|
|
int n;
|
|
struct dirent* dp;
|
|
OBIDMS_column_p column;
|
|
char* column_file_path;
|
|
char* column_dir_name;
|
|
char* column_dir_path;
|
|
char* view_file_name;
|
|
char* view_relative_path;
|
|
char* view_full_path;
|
|
|
|
ret_value = 0;
|
|
|
|
// Don't rollback if view finished
|
|
if (view->read_only)
|
|
return ret_value;
|
|
|
|
for (i=0; i<((view->infos)->column_count); i++)
|
|
{
|
|
column = *((OBIDMS_column_p*)ll_get(view->columns, i));
|
|
if (column == NULL)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError getting a column from the linked list of column pointers of a view when rollbacking the view");
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
|
|
// Delete the column file if it was created by the view (it was if it is writable)
|
|
if (column->writable)
|
|
{
|
|
// Build file and dir paths
|
|
column_file_path = obi_column_full_path(view->dms, (column->header)->name, (column->header)->version);
|
|
if (column_file_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column file path when rollbacking a view");
|
|
ret_value = -1;
|
|
continue;
|
|
}
|
|
column_dir_name = obi_build_column_directory_name((column->header)->name);
|
|
if (column_dir_name == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column directory name when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
column_dir_path = obi_dms_get_full_path(view->dms, column_dir_name);
|
|
if (column_dir_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column directory path when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
|
|
// Try to close the column (?)
|
|
if (obi_close_column(column) < 0)
|
|
ret_value = -1;
|
|
|
|
// Delete the column file
|
|
if (remove(column_file_path) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError deleting a column file when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
|
|
// Delete column dir if it's empty TODO doesn't happen because version file
|
|
n = count_dir(column_dir_path);
|
|
if (n == 0)
|
|
{
|
|
if (remove(column_dir_path) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError deleting a column directory when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
}
|
|
free(column_file_path);
|
|
free(column_dir_name);
|
|
free(column_dir_path);
|
|
}
|
|
}
|
|
// Delete line selection if there is one
|
|
if (view->line_selection != NULL)
|
|
{
|
|
column = view->line_selection;
|
|
if (column->writable)
|
|
{
|
|
// Build file and dir paths
|
|
column_file_path = obi_column_full_path(view->dms, (column->header)->name, (column->header)->version);
|
|
if (column_file_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column file path when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
column_dir_name = obi_build_column_directory_name((column->header)->name);
|
|
if (column_dir_name == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column directory name when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
column_dir_path = obi_dms_get_full_path(view->dms, column_dir_name);
|
|
if (column_dir_path == NULL)
|
|
{
|
|
obidebug(1, "\nError getting a column directory path when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
|
|
// Try to close the column (?)
|
|
if (obi_close_column(column) < 0)
|
|
ret_value = -1;
|
|
|
|
// Delete the column file
|
|
if (remove(column_file_path) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError deleting a column file when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
|
|
// Delete column dir if it's empty TODO doesn't happen because version file
|
|
n = count_dir(column_dir_path);
|
|
if (n == 0)
|
|
{
|
|
if (remove(column_dir_path) < 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError deleting a column directory when rollbacking a view");
|
|
ret_value = -1;
|
|
}
|
|
}
|
|
free(column_file_path);
|
|
free(column_dir_name);
|
|
free(column_dir_path);
|
|
}
|
|
}
|
|
|
|
// Delete view file
|
|
view_file_name = (char*) malloc(strlen((view->infos)->name) + strlen(".obiview_unfinished") + 1);
|
|
if (view_file_name == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view file name");
|
|
ret_value = -1;
|
|
}
|
|
else
|
|
{
|
|
strcpy(view_file_name, (view->infos)->name);
|
|
strcat(view_file_name, ".obiview_unfinished");
|
|
rewinddir((view->dms)->view_directory);
|
|
while ((dp = readdir((view->dms)->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, view_file_name) == 0)
|
|
{
|
|
view_relative_path = (char*) malloc(strlen(VIEW_DIR_NAME) + strlen(view_file_name) + 2);
|
|
strcpy(view_relative_path, VIEW_DIR_NAME);
|
|
strcat(view_relative_path, "/");
|
|
strcat(view_relative_path, view_file_name);
|
|
view_full_path = obi_dms_get_full_path(view->dms, view_relative_path);
|
|
remove(view_full_path);
|
|
free(view_relative_path);
|
|
free(view_full_path);
|
|
}
|
|
}
|
|
free(view_file_name);
|
|
}
|
|
|
|
// Free the linked list of column pointers
|
|
ll_free(view->columns);
|
|
|
|
// Free the column dictionary
|
|
ht_free(view->column_dict);
|
|
free(view);
|
|
|
|
return ret_value;
|
|
}
|
|
|
|
|
|
int obi_delete_view(OBIDMS_p dms, const char* view_name)
|
|
{
|
|
char* view_file_name;
|
|
char* view_relative_path;
|
|
char* view_full_path;
|
|
struct dirent* dp;
|
|
int finished_view;
|
|
|
|
// Check that the view exists
|
|
if (obi_view_exists(dms, view_name) == false)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to delete a view: view '%s' does not exist", view_name);
|
|
return -1;
|
|
}
|
|
|
|
// Check that the view is finished
|
|
finished_view = view_is_finished(dms, view_name);
|
|
if (finished_view == -1)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to check if view '%s' is finished", view_name);
|
|
return -1;
|
|
}
|
|
|
|
if (finished_view == 0)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to delete a view: view '%s' is not finished", view_name);
|
|
return -1;
|
|
}
|
|
|
|
// Delete view file
|
|
view_file_name = (char*) malloc(strlen(view_name) + strlen(".obiview") + 1);
|
|
if (view_file_name == NULL)
|
|
{
|
|
obi_set_errno(OBI_MALLOC_ERROR);
|
|
obidebug(1, "\nError allocating memory for a view file name");
|
|
return -1;
|
|
}
|
|
|
|
strcpy(view_file_name, view_name);
|
|
strcat(view_file_name, ".obiview");
|
|
rewinddir(dms->view_directory);
|
|
while ((dp = readdir(dms->view_directory)) != NULL)
|
|
{
|
|
if ((dp->d_name)[0] == '.')
|
|
continue;
|
|
if (strcmp(dp->d_name, view_file_name) == 0)
|
|
{
|
|
view_relative_path = (char*) malloc(strlen(VIEW_DIR_NAME) + strlen(view_file_name) + 2);
|
|
strcpy(view_relative_path, VIEW_DIR_NAME);
|
|
strcat(view_relative_path, "/");
|
|
strcat(view_relative_path, view_file_name);
|
|
view_full_path = obi_dms_get_full_path(dms, view_relative_path);
|
|
remove(view_full_path);
|
|
free(view_relative_path);
|
|
free(view_full_path);
|
|
}
|
|
}
|
|
free(view_file_name);
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_create_auto_count_column(Obiview_p view)
|
|
{
|
|
index_t i;
|
|
OBIDMS_column_p column;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to create an automatic count column in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
if (obi_view_add_column(view, COUNT_COLUMN, -1, NULL, OBI_INT, 0, 1, NULL, false, false, false, NULL, NULL, -1, "{}", true) < 0)
|
|
{
|
|
obidebug(1, "Error adding an automatic count column in a view");
|
|
return -1;
|
|
}
|
|
|
|
column = obi_view_get_column(view, COUNT_COLUMN);
|
|
if (column == NULL)
|
|
{
|
|
obidebug(1, "Error adding an automatic count column in a view");
|
|
return -1;
|
|
}
|
|
|
|
// Fill the column with 1s
|
|
for (i=0; i < (view->infos)->line_count; i++)
|
|
{
|
|
if (obi_set_int_with_elt_idx_and_col_p_in_view(view, column, i, 0, 1) < 0)
|
|
{
|
|
obidebug(1, "Error adding an automatic count column in a view");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
int obi_create_auto_id_column(Obiview_p view, const char* prefix)
|
|
{
|
|
index_t i;
|
|
OBIDMS_column_p column;
|
|
char* id;
|
|
|
|
// Check that the view is not read-only
|
|
if (view->read_only)
|
|
{
|
|
obi_set_errno(OBIVIEW_ERROR);
|
|
obidebug(1, "\nError trying to create an automatic count column in a read-only view");
|
|
return -1;
|
|
}
|
|
|
|
// Delete old ID column if it exists
|
|
if (obi_view_get_column(view, ID_COLUMN) != NULL)
|
|
{
|
|
if (obi_view_delete_column(view, ID_COLUMN, false) < 0)
|
|
{
|
|
obidebug(1, "Error deleting an ID column to replace it in a view");
|
|
return -1;
|
|
}
|
|
}
|
|
|
|
// Create the new ID column
|
|
if (obi_view_add_column(view, ID_COLUMN, -1, NULL, OBI_STR, 0, 1, NULL, false, false, false, NULL, NULL, -1, "{}", true) < 0)
|
|
{
|
|
obidebug(1, "Error adding an automatic ID column in a view");
|
|
return -1;
|
|
}
|
|
|
|
column = obi_view_get_column(view, ID_COLUMN);
|
|
if (column == NULL)
|
|
{
|
|
obidebug(1, "Error adding an automatic ID column in a view");
|
|
return -1;
|
|
}
|
|
|
|
// If prefix is NULL, use default prefix
|
|
if (prefix == NULL)
|
|
prefix = ID_PREFIX;
|
|
|
|
// Fill the column with automatic ids
|
|
for (i=0; i < (view->infos)->line_count; i++)
|
|
{
|
|
id = build_word_with_idx(prefix, i);
|
|
if (id == NULL)
|
|
{
|
|
obidebug(1, "Error building an id for an automatic ID column");
|
|
return -1;
|
|
}
|
|
if (obi_set_str_with_elt_idx_and_col_p_in_view(view, column, i, 0, id) < 0)
|
|
{
|
|
obidebug(1, "Error adding an automatic count column in a view");
|
|
return -1;
|
|
}
|
|
free(id);
|
|
}
|
|
|
|
return 0;
|
|
}
|
|
|
|
|
|
// TODO Move to another file?
|
|
/*********** FOR BLOB COLUMNS ***********/
|
|
|
|
Obi_blob_p obi_get_blob_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIBlob_NA;
|
|
return obi_column_get_blob_with_elt_idx(column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
Obi_blob_p obi_get_blob_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column_p, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIBlob_NA;
|
|
return obi_get_blob_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
Obi_blob_p obi_get_blob_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIBlob_NA;
|
|
return obi_get_blob_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
Obi_blob_p obi_get_blob_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIBlob_NA;
|
|
return obi_get_blob_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/*********** FOR BOOL COLUMNS ***********/
|
|
|
|
int obi_set_bool_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, index_t element_idx, obibool_t value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column_p, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obibool_with_elt_idx(column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obibool_t obi_get_bool_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIBool_NA;
|
|
return obi_column_get_obibool_with_elt_idx(column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_bool_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, const char* element_name, obibool_t value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column_p, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_bool_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obibool_t obi_get_bool_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column_p, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column_p, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIBool_NA;
|
|
return obi_get_bool_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_bool_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, obibool_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_bool_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_bool_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, obibool_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_bool_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obibool_t obi_get_bool_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIBool_NA;
|
|
return obi_get_bool_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
obibool_t obi_get_bool_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIBool_NA;
|
|
return obi_get_bool_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR CHAR COLUMNS ***********/
|
|
|
|
int obi_set_char_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, obichar_t value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obichar_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obichar_t obi_get_char_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIChar_NA;
|
|
return obi_column_get_obichar_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_char_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, obichar_t value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_char_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obichar_t obi_get_char_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIChar_NA;
|
|
return obi_get_char_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_char_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, obichar_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_char_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_char_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, obichar_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_char_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obichar_t obi_get_char_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIChar_NA;
|
|
return obi_get_char_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
obichar_t obi_get_char_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIChar_NA;
|
|
return obi_get_char_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR FLOAT COLUMNS ***********/
|
|
|
|
int obi_set_float_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, obifloat_t value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obifloat_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obifloat_t obi_get_float_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIFloat_NA;
|
|
return obi_column_get_obifloat_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_float_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, obifloat_t value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_float_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obifloat_t obi_get_float_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIFloat_NA;
|
|
return obi_get_float_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_float_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, obifloat_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_float_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_float_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, obifloat_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_float_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obifloat_t obi_get_float_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIFloat_NA;
|
|
return obi_get_float_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
obifloat_t obi_get_float_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIFloat_NA;
|
|
return obi_get_float_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR INT COLUMNS ***********/
|
|
|
|
int obi_set_int_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, obiint_t value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obiint_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obiint_t obi_get_int_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIInt_NA;
|
|
return obi_column_get_obiint_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_int_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, obiint_t value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_int_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obiint_t obi_get_int_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIInt_NA;
|
|
return obi_get_int_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_int_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, obiint_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_int_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_int_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, obiint_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_int_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
obiint_t obi_get_int_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIInt_NA;
|
|
return obi_get_int_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
obiint_t obi_get_int_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIInt_NA;
|
|
return obi_get_int_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR QUAL COLUMNS ***********/
|
|
|
|
int obi_set_qual_char_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, const char* value, int offset)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obiqual_char_with_elt_idx(column, line_nb, element_idx, value, offset);
|
|
}
|
|
|
|
|
|
int obi_set_qual_int_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, const uint8_t* value, int value_length)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obiqual_int_with_elt_idx(column, line_nb, element_idx, value, value_length);
|
|
}
|
|
|
|
|
|
char* obi_get_qual_char_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, int offset)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIQual_char_NA;
|
|
return obi_column_get_obiqual_char_with_elt_idx(column, line_nb, element_idx, offset);
|
|
}
|
|
|
|
|
|
const uint8_t* obi_get_qual_int_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, int* value_length)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIQual_int_NA;
|
|
return obi_column_get_obiqual_int_with_elt_idx(column, line_nb, element_idx, value_length);
|
|
}
|
|
|
|
|
|
int obi_set_qual_char_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, const char* value, int offset)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_qual_char_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value, offset);
|
|
}
|
|
|
|
|
|
int obi_set_qual_int_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, const uint8_t* value, int value_length)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_qual_int_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value, value_length);
|
|
}
|
|
|
|
|
|
char* obi_get_qual_char_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, int offset)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIQual_char_NA;
|
|
return obi_get_qual_char_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, offset);
|
|
}
|
|
|
|
|
|
const uint8_t* obi_get_qual_int_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, int* value_length)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIQual_int_NA;
|
|
return obi_get_qual_int_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value_length);
|
|
}
|
|
|
|
|
|
int obi_set_qual_char_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, const char* value, int offset)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_qual_char_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value, offset);
|
|
}
|
|
|
|
|
|
int obi_set_qual_char_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, const char* value, int offset)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_qual_char_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value, offset);
|
|
}
|
|
|
|
|
|
char* obi_get_qual_char_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, int offset)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIQual_char_NA;
|
|
return obi_get_qual_char_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, offset);
|
|
}
|
|
|
|
|
|
char* obi_get_qual_char_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, int offset)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIQual_char_NA;
|
|
return obi_get_qual_char_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, offset);
|
|
}
|
|
|
|
|
|
int obi_set_qual_int_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, const uint8_t* value, int value_length)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_qual_int_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value, value_length);
|
|
}
|
|
|
|
|
|
int obi_set_qual_int_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, const uint8_t* value, int value_length)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_qual_int_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value, value_length);
|
|
}
|
|
|
|
|
|
const uint8_t* obi_get_qual_int_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, int* value_length)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIQual_int_NA;
|
|
return obi_get_qual_int_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value_length);
|
|
}
|
|
|
|
|
|
const uint8_t* obi_get_qual_int_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, int* value_length)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIQual_int_NA;
|
|
return obi_get_qual_int_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value_length);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR SEQ COLUMNS ***********/
|
|
|
|
int obi_set_seq_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, const char* value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obiseq_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
char* obi_get_seq_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBISeq_NA;
|
|
return obi_column_get_obiseq_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_seq_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, const char* value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_seq_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
char* obi_get_seq_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBISeq_NA;
|
|
return obi_get_seq_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_seq_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, const char* value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_seq_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_seq_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, const char* value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_seq_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
char* obi_get_seq_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBISeq_NA;
|
|
return obi_get_seq_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
char* obi_get_seq_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBISeq_NA;
|
|
return obi_get_seq_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR STR COLUMNS ***********/
|
|
|
|
int obi_set_str_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, const char* value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_obistr_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
const char* obi_get_str_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIStr_NA;
|
|
return obi_column_get_obistr_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_str_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, const char* value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_str_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
const char* obi_get_str_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIStr_NA;
|
|
return obi_get_str_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_str_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, const char* value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_str_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_str_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, const char* value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_str_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
const char* obi_get_str_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIStr_NA;
|
|
return obi_get_str_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
const char* obi_get_str_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIStr_NA;
|
|
return obi_get_str_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR COLUMNS WITH INDEXED VALUES ***********/
|
|
|
|
|
|
int obi_set_index_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx, index_t value)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_index_with_elt_idx(column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
index_t obi_get_index_with_elt_idx_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, index_t element_idx)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBIIdx_NA;
|
|
return obi_column_get_index_with_elt_idx(column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_index_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name, index_t value)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return -1;
|
|
return obi_set_index_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
index_t obi_get_index_with_elt_name_and_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const char* element_name)
|
|
{
|
|
index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
|
|
if (element_idx == OBIIdx_NA)
|
|
return OBIIdx_NA;
|
|
return obi_get_index_with_elt_idx_and_col_p_in_view(view, column, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
int obi_set_index_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name, index_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_index_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name, value);
|
|
}
|
|
|
|
|
|
int obi_set_index_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx, index_t value)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_index_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx, value);
|
|
}
|
|
|
|
|
|
index_t obi_get_index_with_elt_idx_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, index_t element_idx)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIIdx_NA;
|
|
return obi_get_index_with_elt_idx_and_col_p_in_view(view, column_p, line_nb, element_idx);
|
|
}
|
|
|
|
|
|
index_t obi_get_index_with_elt_name_and_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const char* element_name)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBIIdx_NA;
|
|
return obi_get_index_with_elt_name_and_col_p_in_view(view, column_p, line_nb, element_name);
|
|
}
|
|
|
|
/****************************************/
|
|
|
|
|
|
/*********** FOR ARRAY COLUMNS ***********/
|
|
|
|
int obi_set_array_with_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, const void* value, uint8_t elt_size, int32_t value_length)
|
|
{
|
|
if (prepare_to_set_value_in_column(view, &column, &line_nb) < 0)
|
|
return -1;
|
|
return obi_column_set_array(column, line_nb, value, elt_size, value_length);
|
|
}
|
|
|
|
|
|
const void* obi_get_array_with_col_p_in_view(Obiview_p view, OBIDMS_column_p column, index_t line_nb, int32_t* value_length_p)
|
|
{
|
|
if (prepare_to_get_value_from_column(view, &line_nb) < 0)
|
|
return OBITuple_NA;
|
|
return obi_column_get_array(column, line_nb, value_length_p);
|
|
}
|
|
|
|
|
|
int obi_set_array_with_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, const void* value, uint8_t elt_size, int32_t value_length)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return -1;
|
|
return obi_set_array_with_col_p_in_view(view, column_p, line_nb, value, elt_size, value_length);
|
|
}
|
|
|
|
|
|
const void* obi_get_array_with_col_name_in_view(Obiview_p view, const char* column_name, index_t line_nb, int32_t* value_length_p)
|
|
{
|
|
OBIDMS_column_p column_p;
|
|
column_p = obi_view_get_column(view, column_name);
|
|
if (column_p == NULL)
|
|
return OBITuple_NA;
|
|
return obi_get_array_with_col_p_in_view(view, column_p, line_nb, value_length_p);
|
|
}
|
|
|
|
/****************************************/
|