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When running `conda env create -f environment.yml` I got this error:
```
Collecting package metadata (repodata.json): done
Solving environment: failed
ResolvePackageNotFound:
- samtools==1.19…
arusa updated
4 hours ago
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Hi all, I got an interesting and unexpected error.
Unfortunately, I can not retrieve the bam file to see what it is about:
```bash
samtools sort: failed to read header from "-"
```
the log:
```b…
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I've been using bcftools with Google Cloud Storage support, and it would be very useful to be able to pass verbosity into htslib in order to understand how the http requests are working.
It seems …
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Hi Mitchell,
I'm trying to run StainedGlass on the new `mPanTro3` assembly. When I run the following:
```
snakemake --cores 8 --config sample=.mPanTro3 \
fasta=mPanTro3.pri.cur.2023112…
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Here is the command I used, which I understand means I am allocating 100 GB of memory to the process:
`AAFTF polish --method polca -i DS1bio.rmdup.fasta -o DS1bio.polca.fasta -c 256 --left DS1bio_fi…
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### Description of the bug
Experiencing 137 on samtools sort, after talking with slack community and seqeria, seems to be related to [this](https://github.com/nf-core/methylseq/pull/330)
### Command…
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### Description of bug
One could run `samtools stats` with the option to omit duplicates from calculations. When multiqc aggregates that output into a report, it now produces two columns named "Re…
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Hi,
I'm trying to do some processing of a bam file consisting of pseudopairs (long read data coerced into pairs format via an ONT workflow). As part of the process of making the output play nicely …
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### Checks
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the [latest version](https://github.com/prefix-dev/pixi/releases) of pixi, us…
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Hi Jody, we just tried to install tb-profiler v6.3.0 and there is an error with samtools when running. Can you take a look at this?
Thanks!
Simone
[09:55:28] INFO Mapping to reference gen…