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When retrieving the header of a column, the version number of the column

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wanted can now be provided.
This commit is contained in:
Celine Mercier
2015-11-10 13:30:10 +01:00
parent 8ce4f264aa
commit 410e2e02a0
4 changed files with 17 additions and 11 deletions
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4
python/obitools3/obidms/_obidms.pyx
View File

@ -95,7 +95,7 @@ cdef class OBIDMS :
column_name = entry.stem
column_name_b = str2bytes(column_name)
dms[column_name] = {}
header = obi_column_get_header_from_name(self.pointer, column_name_b)
header = obi_column_get_header_from_name(self.pointer, column_name_b, -1)
data_type = bytes2str(name_data_type(header.data_type))
line_count = header.line_count
creation_date = bytes2str(obi_column_format_date(header.creation_date))
@ -137,7 +137,7 @@ cdef class OBIDMS :
# Get the header of the latest version of the column if
# some needed informations are not provided
if ((not data_type or not nb_elements_per_line) and not create) :
header = obi_column_get_header_from_name(self.pointer, column_name_b)
header = obi_column_get_header_from_name(self.pointer, column_name_b, version_number)
# Get the data type if not provided
if not data_type :

3
python/obitools3/obidms/capi/obidmscolumn.pxd
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@ -63,7 +63,8 @@ cdef extern from "obidmscolumn.h" nogil:
const_char_p column_name)
OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms,
const_char_p column_name)
const_char_p column_name,
obiversion_t version_number)
int obi_unmap_header(OBIDMS_column_header_p header)

14
src/obidmscolumn.c
View File

@ -1185,14 +1185,13 @@ void obi_ini_to_NA_values(OBIDMS_column_p column,
}
OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms, const char* column_name) // TODO ADD VERSION ARGUMENT
OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms, const char* column_name, obiversion_t version_number)
{
OBIDMS_column_header_p header;
OBIDMS_column_directory_p column_directory;
char* column_file_name;
int column_file_descriptor;
size_t header_size;
obiversion_t version_number;
// Get the column directory structure associated to the column
column_directory = obi_open_column_directory(dms, column_name);
@ -1202,12 +1201,15 @@ OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms, const char*
return NULL;
}
// Get the latest version number
version_number = obi_get_latest_version_number(column_directory);
// Get the latest version number if not provided
if (version_number < 0)
{
obidebug(1, "\nError getting the latest version number in a column directory");
return NULL;
version_number = obi_get_latest_version_number(column_directory);
if (version_number < 0)
{
obidebug(1, "\nError getting the latest version number in a column directory");
return NULL;
}
}
// Get the column file name

7
src/obidmscolumn.h
View File

@ -169,6 +169,7 @@ size_t obi_get_platform_header_size();
* @param nb_elements_per_line The number of elements per line.
* @param elements_names The names of the elements with ';' as separator.
* @param array_name The name of the array if there is one associated with the column.
* @param comments Optional comments associated with the column.
*
* @returns A pointer on the newly created column structure.
* @retval NULL if an error occurred.
@ -287,7 +288,7 @@ int obi_truncate_and_close_column(OBIDMS_column_p column);
* @since August 2015
* @author Celine Mercier (celine.mercier@metabarcoding.org)
*/
void obi_ini_to_NA_values(OBIDMS_column_p column, index_t first_line_nb, index_t nb_lines); // TO make private?
void obi_ini_to_NA_values(OBIDMS_column_p column, index_t first_line_nb, index_t nb_lines); // TODO make private?
/**
@ -297,6 +298,8 @@ void obi_ini_to_NA_values(OBIDMS_column_p column, index_t first_line_nb, index_t
*
* @param dms A pointer on an OBIDMS.
* @param column_name The name of an OBIDMS column.
* @param version_number The version of the column from which the header should be
* retrieved (-1: latest version).
*
* @returns A pointer on the mmapped header of the column.
* @retval NULL if an error occurred.
@ -304,7 +307,7 @@ void obi_ini_to_NA_values(OBIDMS_column_p column, index_t first_line_nb, index_t
* @since October 2015
* @author Celine Mercier (celine.mercier@metabarcoding.org)
*/
OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms, const char* column_name);
OBIDMS_column_header_p obi_column_get_header_from_name(OBIDMS_p dms, const char* column_name, obiversion_t version_number);
/**