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Hi,
I extracted individual contigs from a bam file using:
`BamDeal_Linux modify bamSplit -r -i me14.sorted.again.bam`
and
`BamDeal_Linux modify bamSplit -i me14.sorted.again.bam`
However, w…
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```
Python 3.9.12
deeptools 3.5.1
alignmentSieve 3.5.1
```
*******
Dear all,
when I run `alignmentSieve` with `ATACshift` option, but not for all my samples, I get as output a truncated bam f…
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I have a copy of htlib (1.11) and demuxlet from gituhub in a directory.
I compiled/link htlib successfully.
When I run 'make' for demux, I got this error message. Need your help. Thank you
========…
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I'm trying to build a docker container with GraphTyper, the pipeline repo and the necessary dependencies (see [current Dockerfile](https://github.com/jmonlong/docker-graphtyper2/blob/master/Dockerfile…
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With Python 3.12 installed on the Ubuntu dev release, when I tried to make, install and run the install test, the test fails with :
```
python3 flye/tests/test_toy.py
Running toy test:
Traceba…
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hi, I'm using SeqLib via freebayes. I just unmounted the file system holding the bams that freebayes was accessing. but the program still had a 0 exit status.
I see this message:
`[E::bgzf_read] b…
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Hi,
I am currently using the SequelTools to perform some QC analysis on some of the PacBio subread sequence data. However, it reports the error message as following:
Beginning quality control fu…
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Hello,
I'm trying to install a package that's using zlib. My error says:
`In file included from lib/bx/misc/bgzf.c:565:0:
src/samtools/bgzf.h:30:10: fatal error: zlib.h: No such file or dir…
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Trying to run the demo example on my local computer. First attempt ran for two days then failed. Second example, I made a smaller region:
chr21 47000000 47500000 AAB 3
And got the following:
docker…
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Currently the htsget protocol assumes that some returned data blocks will contain reads that were not requested. This was an accepted trade-off in the spec but for some privacy usecases, those extra b…