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Strict SAM format as default #87

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Merged
andrewdavidsmith merged 6 commits into from
Oct 6, 2025
Merged

Strict SAM format as default #87

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8fa1fa0
src/abismal.cpp: using the strict-sam mode as default
andrewdavidsmith Oct 6, 2025
6d8478f
src/abismal.cpp: attempting to add a label for the stats output even …
andrewdavidsmith Oct 6, 2025
c9a783f
src/abismal.cpp: fixing some formatting in stats output
andrewdavidsmith Oct 6, 2025
6c7de34
data/md5sum.txt: updating hashes for SAM strands and for mstats outpu…
andrewdavidsmith Oct 6, 2025
5936e0c
../src/abismal.cpp: fixing 'mate1' to 'read1' so I eventually won't h…
andrewdavidsmith Oct 6, 2025
78bf5fe
data/md5sum.txt: updating hashes for 'mate' to 'read'
andrewdavidsmith Oct 6, 2025
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16 changes: 8 additions & 8 deletions data/md5sum.txt
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Original file line number Diff line number Diff line change
Expand Up @@ -6,11 +6,11 @@ aff19aeae4184c38cf364b3a94527098 tests/reads_pbat_pe_2.fq
e94e71292fccd255bad3f3694efe7a4b tests/reads_rpbat_pe_1.fq
8bfa00acd0639dc66acd5aa8ac0369d5 tests/reads_rpbat_pe_2.fq
bcbf01be810cbf4051292813eb6b9225 tests/tRex1.idx
ffff35a5110b3312555fc3ccaa78c99a tests/reads_pbat_pe.sam
af094fdc32b41a1605bb6d5b71e1b767 tests/reads_pe.sam
8370999d6ad6d5afc99ec483f16cc214 tests/reads_rpbat_pe.sam
a6d0c51aa69795b9bf3f9e424af35978 tests/reads.sam
6793c72a4957578afd2092f45f6dab5f tests/reads.mstats
8361153e3610769ed1697fd0551c4adf tests/reads_pbat_pe.mstats
00d3c8c0de72cca992b3561c7734b381 tests/reads_pe.mstats
dfe8102b04166f5127bddfc9c09893f0 tests/reads_rpbat_pe.mstats
e8a5fe0aec564a972ca7a3a36c0022f7 tests/reads_pbat_pe.sam
14e935a5b8a20c8a7422834c3327d1c7 tests/reads_pe.sam
98d6ad9d563e3318756bd5fc3fcbc263 tests/reads_rpbat_pe.sam
8126d46074213ad3674181f4ea4f8bd1 tests/reads.sam
981dd110d1675c77533a485204fb13cc tests/reads.mstats
ba2a0cdbc3e431adf9f85e36d00d783a tests/reads_pbat_pe.mstats
c8211fb637c03050b348e51f2ff91f3a tests/reads_pe.mstats
bd54ba1e720039cb4b662faa4f0e04b3 tests/reads_rpbat_pe.mstats
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