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# Introduction
The essence of a presigned URL is that it gives you privileged access to data (via HTTP verbs, usually `GET`) for a finite amount of time. Some metadata can be obtained via the `HEA…
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**Describe the bug - Dockstore mismatch**
When a .dockstore.yml workflow is updated via a typical push from GitHub, what appears on dockstore.org can be updated faster than what appears if you try to …
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Dear all,
I am trying to run your ATAC pipeline, launching the following script with qsub on our cluster:
************************ lc.sh ************************
source /abcd/conda.sh
conda …
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Many files types such as VCFs, CRAMS, BED, and evidence data files have companion index files that are sometimes required for fast retrieval over specific genomic intervals.
### Overview:
Some WDL…
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Hello, this is probably not a bug, but in rc2 `samtools.wdl` I can see `samtools_reset` task which removes `HP,PS,PC,SA,mg,mc,mi,rm,fi,fp,ri,rp` tags from `bam` file, but I cannot see this task being …
hudja updated
1 month ago
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Hi Jin,
I'm looking for the right value of a platform parameter to be specified to init Caper on my HPC (Mount Sinai). My HPC uses the LSF system. I'm referring to section 2.3 of this manual - http…
ls233 updated
2 years ago
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## Bug Report
### Affected tool(s) or class(es)
VariantRecalibrator
### Affected version(s)
- [X] Latest public release version [4.5.0.0]
- [ ] Latest master branch as of [date of test?]
#…
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Automated workflow execution to support strategic partners
For environmental microbiome data generated outside of the two DOE User Facilities to be incorporated into the NMDC Data Portal, all workfl…
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The VG WDL workflow has a task that splits a BAM up by chromosome. Then it globs all the resulting BAMs into one array, and all the BAM index files into another array, and expects the two arrays to ha…
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I would like to be able to create type aliases, namely something like this:
```
...
type PathToFastq = File
type PathToFasta = File
...
task bwa {
input {
PathToFastq read1
…
nh13 updated
7 months ago