82 lines
2.3 KiB
C
82 lines
2.3 KiB
C
/****************************************************************************
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* OBIDMS_column_seq functions *
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****************************************************************************/
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/**
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* @file obidsmcolumn_seq.c
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* @author Celine Mercier
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* @date November 18th 2015
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* @brief Functions handling OBIColumns containing data in the form of indices referring to DNA sequences.
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*/
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#include <stdlib.h>
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#include <stdio.h>
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#include "obidmscolumn.h"
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#include "obitypes.h"
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#include "dna_seq_indexer.h"
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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 U B L I C F U N C T I O N S
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*
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**********************************************************************/
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int obi_column_set_obiseq_with_elt_idx(OBIDMS_column_p column, index_t line_nb, index_t element_idx, const char* value)
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{
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index_t idx;
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if (obi_column_prepare_to_set_value(column, line_nb) < 0)
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return -1;
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// Add the value in the indexer
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idx = obi_index_dna_seq(column->indexer, value);
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if (idx == -1)
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return -1;
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// Add the value's index in the column
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*(((index_t*) (column->data)) + (line_nb * ((column->header)->nb_elements_per_line)) + element_idx) = idx;
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return 0;
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}
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char* obi_column_get_obiseq_with_elt_idx(OBIDMS_column_p column, index_t line_nb, index_t element_idx)
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{
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index_t idx;
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if (obi_column_prepare_to_get_value(column, line_nb) < 0)
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return OBISeq_NA;
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idx = *(((index_t*) (column->data)) + (line_nb * ((column->header)->nb_elements_per_line)) + element_idx);
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// Check NA
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if (idx == OBIIdx_NA)
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return OBISeq_NA;
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return obi_retrieve_dna_seq(column->indexer, idx);
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}
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int obi_column_set_obiseq_with_elt_name(OBIDMS_column_p column, index_t line_nb, const char* element_name, const char* value)
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{
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index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
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if (element_idx == OBIIdx_NA)
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return -1;
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return obi_column_set_obiseq_with_elt_idx(column, line_nb, element_idx, value);
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}
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char* obi_column_get_obiseq_with_elt_name(OBIDMS_column_p column, index_t line_nb, const char* element_name)
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{
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index_t element_idx = obi_column_get_element_index_from_name(column, element_name);
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if (element_idx == OBIIdx_NA)
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return OBISeq_NA;
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return obi_column_get_obiseq_with_elt_idx(column, line_nb, element_idx);
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}
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