Comments (2)
adamrtalbot
commented on June 24, 2024
This actually occurs on the test data as well:
nextflow run . -profile test,docker --aligner universc --outdir results
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adamrtalbot
commented on June 24, 2024
The log file is added to _log in the working directory:
script running in /universc/launch_universc.sh...
SOURCE '/universc/universc' is an absolute symlink to '/universc/launch_universc.sh'
... script called from /universc
Running launch_universc.sh in '/universc'
UniverSC Copyright (C) 2019 Tom Kelly; Kai Battenberg
This program comes with ABSOLUTELY NO WARRANTY; for details type 'cat LICENSE'. This is free software, and you are welcome to redistribute it under certain conditions; type 'cat LICENSE' for details.
Cell Ranger is called as third-party dependency and is not maintained by this project. Please ensure you comply with the End User License Agreement for all software installed where applicable; for details type 'cat README.md'.
Error: option -t needs to be a technology listed or custom_<barcode>_<UMI>
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Related Issues (20)
- Switch to use central nf-core modules
- Autorenaming of files in new cellranger module leads to erroneous renaming of sample ID containing R1 in it, like in SRR ids HOT 2
- Multi-omics support (meta-issue) HOT 1
- exceeded running time limit (8h) HOT 3
- Crash when specifying existing --star_index using star aligner HOT 6
- Bump up kb to 0.28.0 HOT 3
- Use nf-validation plugin HOT 1
- Update or remove universc HOT 8
- Tests for cellranger-arc HOT 1
- MuData conversion
- Utilize central modules for simpleaf workflow HOT 1
- The cellrangerarc cannot start successfully HOT 2
- When aligner is cellrangerarc the step MTX_TO_SEURAT failed HOT 3
- Avoid error on unknown headers in input.csv HOT 4
- Issues with samplesheet.csv as well as additional columns in the samplesheet HOT 3
- Samplesheet Check Bug HOT 1
- Flexible input read format with STARsolo with --soloBarcodeReadLength HOT 1
- Make scrnaseq pipeline v2.5.1 compatible with nextflow v22.04.0 HOT 1
- Clean up mtx conversion code
- Update to the latest simpleaf HOT 3
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