Comments (2)
gkarthik
commented on August 19, 2024
Unmapped reads should just not be written to the trimmed BAM file. There shouldn't be a segmentation fault. Would it be possible for you to provide a test file for which you got the seg fault? Thank you!
I'll include an option to write unmapped reads to the trimmed file.
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gkarthik
commented on August 19, 2024
Fixed by 1b42612
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Related Issues (20)
- ivar consensus: call reference at positions with low coverage HOT 1
- primer trimming issue with small insert sizes
- Please update release HOT 2
- build from source fails with GCC >= 10 HOT 1
- Concurrency for `ivar trim`? HOT 10
- Ivar-Freyja Pipeline creates +/- bases and "#Name?" cells HOT 1
- Automated minimum read length "-m" setting HOT 2
- Silent integer overflows in several ivar params
- Remove excess calls to insertionSort HOT 3
- ivar version command not updated accordingly
- Clarification of new ivar consensus -c (minimum insertion frequency) parameter
- slow performance of ivar 1.3.2 HOT 1
- ivar trim -f option incompatible with new piping functionality HOT 3
- ivar trim hangs when using -f parameter
- Further speedup in iVar Trim primer finding HOT 3
- clarification of ivar trim -e option HOT 1
- iVar variants weird output HOT 5
- Error building the docker image from the Dockerfile HOT 3
- Discrepancy between samtools depth and TOTAL_DEPTH in ivar HOT 1
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