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Hello, I'm getting this error while I was analyzing.
I'm using ubuntu on WSL.
$ parallel-fastq-dump --threads 8 --split-files --gzip --sra-id SRR2244401
2022-10-05 10:14:30,278 - SRR ids: ['SRR22…
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Hello,
I'm getting this error running parallel-fastq-dump on an HPC.
2022-09-28T15:55:16 fastq-dump.2.11.0 err: storage exhausted while writing file within file system module - system bad file…
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Hi, Dear team:
I have downloaded fastq files from NCBI, which can be only processed by old cellranger version because new version cannot auto_detect chemistry. Here I used CellRanger count (version 3…
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### Context
The error message(s):
https://github.com/AlexsLemonade/refinebio/actions/runs/3109588470/jobs/5039931138#step:12:3093
```
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https://mp.weixin.qq.com/s/WQdaPedEwmREgx6wgEhaqQ
ixxmu updated
6 months ago
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Hi,
Is there a programmatic way to fetch bam URLs (from SRR IDs)? I need them to download original bam files (aria2c or wget) for scRNAseq datasets.
Thanks and good day.
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I am trying to download genotype imputed data from an accepted project from dbGaP. Once the access has been granted, I've followed the [download guidelines](https://www.ncbi.nlm.nih.gov/books/NBK57024…
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2023-04-24T02:13:01 fasterq-dump.2.11.2 err: extract_acc2( '/home/bioinfo/sunyy/work/CRC/WGS/IT_SRP136711/sra/SRR6915139' ).VFSManagerMake() -> RC(rcFS,rcDirectory,rcAccessing,rcNoObj,rcUnknown)
2023…
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Test setup:
human reads from https://www.ncbi.nlm.nih.gov/sra/?term=SRR034956
`158G all.fastq.gz`
ran KMC to produce a KFF file:
```
\time kmc -fq -okff -k31 -ci2 all.fastq.gz kmc_k31 .
T…