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Fix to issue 299 and 297 #300

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Mar 13, 2024
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1 change: 1 addition & 0 deletions .gitignore
Original file line number Diff line number Diff line change
Expand Up @@ -10,3 +10,4 @@ log/
reports/
testme.sh
.nf-test*
.vscode
1 change: 1 addition & 0 deletions CHANGELOG.md
Original file line number Diff line number Diff line change
Expand Up @@ -8,6 +8,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- Change from pytests to nf-test ([#291](https://github.com/nf-core/scrnaseq/pull/291))
- Update template to v2.13.1 ([#309](https://github.com/nf-core/scrnaseq/pull/309))
- Update to kallisto|bustools v0.28.2 ([#294](https://github.com/nf-core/scrnaseq/pull/294))
- Fix cellrangerarc matrix conversions and protocol selection ([#300](https://github.com/nf-core/scrnaseq/pull/300))

## v2.5.1

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5 changes: 5 additions & 0 deletions assets/protocols.json
Original file line number Diff line number Diff line change
Expand Up @@ -30,6 +30,11 @@
"protocol": "SC3Pv3"
}
},
"cellrangerarc": {
"auto": {
"protocol": "auto"
}
},
"star": {
"10XV1": {
"protocol": "CB_UMI_Simple",
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4 changes: 2 additions & 2 deletions modules.json
Original file line number Diff line number Diff line change
Expand Up @@ -22,7 +22,7 @@
},
"cellrangerarc/count": {
"branch": "master",
"git_sha": "575e1bc54b083fb15e7dd8b5fcc40bea60e8ce83",
"git_sha": "18e53e27cfeca5dbbfbeee675c05438dec68245f",
"installed_by": ["modules"]
},
"cellrangerarc/mkgtf": {
Expand All @@ -42,7 +42,7 @@
},
"gffread": {
"branch": "master",
"git_sha": "575e1bc54b083fb15e7dd8b5fcc40bea60e8ce83",
"git_sha": "b1b959609bda44341120aed1766329909f54b8d0",
"installed_by": ["modules"]
},
"gunzip": {
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6 changes: 3 additions & 3 deletions modules/nf-core/cellrangerarc/count/main.nf

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2 changes: 2 additions & 0 deletions modules/nf-core/gffread/tests/main.nf.test

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5 changes: 5 additions & 0 deletions modules/nf-core/gffread/tests/nextflow-gff3.config

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