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Searched refs:GENE_SLIDING_STEP (Results 1 – 4 of 4) sorted by relevance

/dports/biology/subread/subread-2.0.2-source/src/
H A Dindex-builder.c45 int GENE_SLIDING_STEP = 3; variable
117 …if(gehash_create_ex(& table, expected_hash_items, 0, SUBINDEX_VER2, GENE_SLIDING_STEP, padding_aro… in build_gene_index()
126 table.index_gap = GENE_SLIDING_STEP; in build_gene_index()
359 for (i=0; i<GENE_SLIDING_STEP; i++) in build_gene_index()
599 for (i=0; i<GENE_SLIDING_STEP; i++) in scan_gene_index()
1034 GENE_SLIDING_STEP = 3; in main()
1051 GENE_SLIDING_STEP =1; in main()
1169 memory_limit = GENE_SLIDING_STEP==1?22000:11500; in main()
1173 if(memory_limit > 12000 && GENE_SLIDING_STEP>2) in main()
1182 print_in_box(80, 0, 0, " Gapped index : %s", GENE_SLIDING_STEP>1?"yes":"no"); in main()
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H A Dsorted-hashtable.h42 … size_t expected_size, char is_small_table, int version_number, int GENE_SLIDING_STEP, int padding…
H A Dcore.c3125 int GENE_SLIDING_STEP = global_context -> current_index -> index_gap; local
3154 int CR15GLS = (current_rlen - 15 - GENE_SLIDING_STEP)<<16;
3158 if(subread_step<(GENE_SLIDING_STEP<<16))subread_step = GENE_SLIDING_STEP<<16;
3165 int noninformative_subreads_for_each_gap[GENE_SLIDING_STEP];
3183 for(xk1=0;xk1<GENE_SLIDING_STEP;xk1++)
3198 for(xk1=0; xk1<GENE_SLIDING_STEP ; xk1++)
3207 if(GENE_SLIDING_STEP > 1)
3208 subread_offset -= subread_offset%(GENE_SLIDING_STEP) - xk1;
3229 for(xk1=0;xk1<GENE_SLIDING_STEP;xk1++)
H A Dcore-junction.c5158 int GENE_SLIDING_STEP = global_context->current_index -> index_gap; in core_fragile_junction_voting() local
5180 subread_offset1 -= subread_offset1%GENE_SLIDING_STEP; in core_fragile_junction_voting()
5181 subread_offset1 += GENE_SLIDING_STEP-1; in core_fragile_junction_voting()
5183 for(i=0; i<GENE_SLIDING_STEP ; i++) in core_fragile_junction_voting()
5186 subread_offset -= subread_offset%GENE_SLIDING_STEP -i; in core_fragile_junction_voting()