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Since the biowulf_cluster.config did not work for me, I used singularity.config and I could successfully ran the example.
When I ran my own data, it always failed at the run_star step. Note that I su…
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I just noticed that vg is producing headers that mix up the order of the sequences in the FASTA file.
```
@HD VN:1.3 SO:coordinate
@SQ SN:1 LN:249250621
@SQ SN:10 LN:135534747
…
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The current method for most rules is set with attempts. For example, `threads: lambda wildcards, attempt: attempt * 2`. This is not ideal for rules that are known to be compute intensive and can use m…
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to save space on biowulf
depends on #97
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```
stream_sra.py -a SRR1616919 -M 10 head.1.fq head.2.fq
Traceback (most recent call last):
File "/panfs/pan1.be-md.ncbi.nlm.nih.gov/product_manager_research_projects/chipo/ultraenv/bin/strea…
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the pipeline works for me, but for wilfried it fails at star2p
## wilfried's log (fail)
`/vf/users/CCBR/charlie_test_wil/charlie4/logs/40895447.40907635.star2p.sample=GI1_T.err`
```
Building D…
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## Feature Request
Add HS1/T2T as a reference genome
- [ ] add to biowulf
- [ ] add to frce
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I am getting this error
```
/data/Ziegelbauer_lab/tools/NCLscan-1.7.0/NCLscan.py -c /vf/users/Ziegelbauer_lab/circRNADetection/circRNA_daq_v0.8.x/samples_3_032223/nclscan.config -o test -pj iSLK-BAC…
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Will need to add in unit tests for testing out Singularity functionality. This is limited by the inability to call Singularity images remotely from quay.io. Until that feature is supported by Singular…
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## Overview
A bug was found when using the default module for Snakemake on Biowulf (7.7.0). During the dry-run, it reports that additional rules (which weren't supposed to be running need to run). …