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I have installed `sra-tools` v3.0.10 distributed from Bioconda for **linux-64** platform. Running `fasterq-dump` occupies far more RAM than the flags would imply (default 100 MB/core) or I have ever e…
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for
```
~/sratoolkit.2.8.1-3-ubuntu64/bin/fastq-dump.2.8.1-3 -A SRR1929297 -Z | syrah -k 31 | sourmash compute - -o SRR1929297_syrah.sig
```
```
syrah!
reading sequences and outputting soli…
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I update several settings to let the vcf pipeline share the same docker container with RNA pipeline. The update is in the update_docker branch.
@amcooksey , could you check if the new Docker settings…
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The below results are from Wynton HPC on 2023-09-15T10:15 ~~2023-09-14T19:00~~.
# CentOS 7
```sh
[dev2]$ grep -E "^# [[].* Detected missing library dependencies" centos7.check-libs.out2
…
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We are trying to use prefetch to download data. Command is:
$ ./sratoolkit.3.1.1-centos_linux64/bin/prefetch -vvv --ngc prj_20495_D27416.ngc SRR9228789
Message returned is:
2024-10-09T16:55:5…
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https://mp.weixin.qq.com/s/J0i5mhZKMj3PEP_p3-U2Wg
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Hi there
I am trying to add the busco/compleasm step to my pipeline as adding rnaseq data appears to be making my output too conservative
I am using a conda environment with braker v3.0.8 and givi…
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Over the past 24 hours, I've tried using prefetch with multiple .krt files from multiple dbGaP projects, with no success. The input and output are always of the form:
`$ .../sratoolkit.3.1.1-centos…
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# Modules to be tested
* gistic2 [needs ncurses API 5 compatibility package on Rocky 8]
* r-siteconfig [needs version check]
* snpeff [wrong version installed; snpeff/5.0e (L) snpeff/5.1e s…
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### BioProject Checklist:
---------------
- [x] PRJEB1903
- [x] PRJNA268569
- [x] PRJNA280092
- [x] PRJEB4873
- [x] PRJEB10691
- [x] PRJNA325588
- [x] PRJNA330761
- [x] PRJNA354688
- [x] PRJ…