| /dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/libs/loader/ |
| H A D | sequence-writer.c | 64 bool keepMismatchQual, in SequenceWriteRecord() argument
95 if (nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in SequenceWriteRecord()
97 h_readInfo = malloc(nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0])); in SequenceWriteRecord()
107 if (keepMismatchQual) { in SequenceWriteRecord()
144 if (keepMismatchQual) { in SequenceWriteRecord()
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| H A D | common-writer.c | 572 … settings->keepMismatchQual, settings->no_real_output, settings->hasTI, settings->QualQuantizer); in WriteSoloFragments()
1552 if (G->keepMismatchQual) EditUnalignedQualities(qual, AR_HAS_MISMATCH(data), readlen); in ArchiveFile()
1741 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer); in ArchiveFile()
1822 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer); in ArchiveFile()
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| /dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/test/loader/ |
| H A D | sequence-writer.c | 64 bool keepMismatchQual, in SequenceWriteRecord() argument
95 if (nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in SequenceWriteRecord()
97 h_readInfo = malloc(nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0])); in SequenceWriteRecord()
107 if (keepMismatchQual) { in SequenceWriteRecord()
144 if (keepMismatchQual) { in SequenceWriteRecord()
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| /dports/biology/sra-tools/sra-tools-2.11.0/tools/fastq-loader/ |
| H A D | sequence-writer.c | 68 bool keepMismatchQual, in SequenceWriteRecord() argument
100 if (nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in SequenceWriteRecord()
102 h_readInfo = malloc(nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0])); in SequenceWriteRecord()
112 if (keepMismatchQual) { in SequenceWriteRecord()
149 if (keepMismatchQual) { in SequenceWriteRecord()
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| H A D | sequence-writer.h | 81 bool keepMismatchQual,
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| H A D | common-writer.h | 91 bool keepMismatchQual; member
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| H A D | spot-assembler.h | 130 bool keepMismatchQual,
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| H A D | spot-assembler.c | 419 bool keepMismatchQual, in SpotAssemblerWriteSoloFragments() argument
515 …rc = SequenceWriteRecord(seq, &srec, isColorSpace, false, platform, keepMismatchQual, no_real_outp… in SpotAssemblerWriteSoloFragments()
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| H A D | common-writer.c | 1002 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer, G->dropReadnames); in ArchiveFile()
1059 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer, G->dropReadnames); in ArchiveFile()
1208 self->settings.keepMismatchQual, in CommonWriterComplete()
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| /dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/libs/loader/ |
| H A D | sequence-writer.c | 64 bool keepMismatchQual, in SequenceWriteRecord() argument
95 if (nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in SequenceWriteRecord()
97 h_readInfo = malloc(nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0])); in SequenceWriteRecord()
107 if (keepMismatchQual) { in SequenceWriteRecord()
144 if (keepMismatchQual) { in SequenceWriteRecord()
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| H A D | common-writer.c | 572 … settings->keepMismatchQual, settings->no_real_output, settings->hasTI, settings->QualQuantizer); in WriteSoloFragments()
1552 if (G->keepMismatchQual) EditUnalignedQualities(qual, AR_HAS_MISMATCH(data), readlen); in ArchiveFile()
1741 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer); in ArchiveFile()
1822 … G->keepMismatchQual, G->no_real_output, G->hasTI, G->QualQuantizer); in ArchiveFile()
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| /dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/test/loader/ |
| H A D | sequence-writer.c | 64 bool keepMismatchQual, in SequenceWriteRecord() argument
95 if (nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in SequenceWriteRecord()
97 h_readInfo = malloc(nreads * elemSize + keepMismatchQual * seqLen * sizeof(mask[0])); in SequenceWriteRecord()
107 if (keepMismatchQual) { in SequenceWriteRecord()
144 if (keepMismatchQual) { in SequenceWriteRecord()
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| /dports/biology/sra-tools/sra-tools-2.11.0/tools/bam-loader/ |
| H A D | sequence-writer.c | 106 if (nreads * elemSize + G.keepMismatchQual * seqLen * sizeof(mask[0]) > sizeof(readInfo)) in writeRecordX()
108 h_readInfo = malloc(nreads * elemSize + G.keepMismatchQual * seqLen * sizeof(mask[0])); in writeRecordX()
118 if (G.keepMismatchQual) { in writeRecordX()
149 if (G.keepMismatchQual) { in writeRecordX()
306 if (rec->numreads <= 2 && !G.keepMismatchQual) { in SequenceWriteRecord()
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| H A D | Globals.h | 78 bool keepMismatchQual; member
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| H A D | bam-loader.c | 949 G.keepMismatchQual |= (pcount > 0); in main_1()
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| /dports/biology/sra-tools/sra-tools-2.11.0/ncbi-vdb/interfaces/loader/ |
| H A D | sequence-writer.h | 78 bool keepMismatchQual,
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| H A D | common-writer.h | 113 bool keepMismatchQual; member
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| /dports/biology/ncbi-vdb/ncbi-vdb-2.11.0/interfaces/loader/ |
| H A D | sequence-writer.h | 78 bool keepMismatchQual,
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| H A D | common-writer.h | 113 bool keepMismatchQual; member
|