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Updated gatk4mergevcfs to pass nf-core test

1

## PR checklist Closes #7902 It seems that empty .gz files generated by simply touch .gz break the snapshot functionality of nf-test by causing an EOFException because the files are...

scorreard

narfmap/hashtable tests fail because of an out of memory error

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### Have you checked the docs? - [x] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting) - [x] [nf-core modules documentation](https://nf-co.re/docs/contributing/modules) ### Description of the bug narfmap/hashtable tests fail because of an out of memory...

mahesh-panchal

rseqc/junctionannotation fails linting

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### Have you checked the docs? - [x] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting) - [x] [nf-core modules documentation](https://nf-co.re/docs/contributing/modules) ### Description of the bug The rseqc/junctionannotation module fails linting because the version is...

mahesh-panchal

Add new module gatk4/nvscorevariants

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## PR checklist Closes #XXX - [ ] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that should...

famosab

DO NOT MERGE update fasta_index_dna

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## PR checklist Closes #7641 - [x] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that should be...

bhargava-morampalli

## PR checklist Closes #XXX - [x] This comment contains a description of changes (with reason). - [x] If you've fixed a bug or added code that should be tested,...

cintiaoi

New module: SoupX ambient RNA removal

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## PR checklist - [x] If you've fixed a bug or added code that should be tested, add tests! - [x] If you've added a new tool - have you...

LeonHafner

Add in path to all files in index directory to copy on Azure correctly.

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## PR checklist Closes #627 - [x] This comment contains a description of changes (with reason). - [ ] If you've fixed a bug or added code that should be...

vsmalladi

Expand gget/gget into different subtools like gget/blast, gget/ref ...

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> I'm not quite convinced that we should have a general wrapper for gget as it is now... > We might need to expand it into different subtools gget/blast, gget/ref,...

famosab

Add sam2lca/updadb module

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And update sam2lca versions to 1.1.4 ## PR checklist - [x] If you've added a new tool - have you followed the module conventions in the [contribution docs](https://github.com/nf-core/modules/tree/master/.github/CONTRIBUTING.md) - [x]...

maxibor