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Merge pull request nf-core#646 from nf-core/update_gatk
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Update modules
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@ramprasadn
ramprasadn authored Nov 11, 2024
2 parents 2eae461 + d029b01 commit 9519733
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7 changes: 4 additions & 3 deletions CHANGELOG.md
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Expand Up @@ -34,13 +34,14 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
| ---------- | ----------- | ----------- |
| bcftools | 1.18 | 1.20 |
| ensemblvep | 112 | 113 |
| genmod | 3.8.2 | 3.8.3 |
| genmod | 3.8.2 | 3.9 |
| mosdepth | 0.3.6 | 0.3.8 |
| multiqc | 1.21 | 1.25.1 |
| picard | 3.1.1 | 3.2.0 |
| picard | 3.1.1 | 3.3.0 |
| samtools | 1.19.2 | 1.21 |
| sentieon | 202308.02 | 202308.03 |
| stranger | 0.8.1 | 0.9.1 |
| stranger | 0.8.1 | 0.9.2 |
| svdb | 2.8.1 | 2.8.2 |
| tabix | 1.19.1 | 1.20 |

## 2.2.0 - Dogmatix [2024-09-13]
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44 changes: 22 additions & 22 deletions modules.json
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Expand Up @@ -7,7 +7,7 @@
"nf-core": {
"bcftools/annotate": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"git_sha": "cb08035150685b11d890d90c9534d4f16869eaec",
"installed_by": ["modules"]
},
"bcftools/concat": {
Expand All @@ -17,7 +17,7 @@
},
"bcftools/filter": {
"branch": "master",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"git_sha": "f85dbddd7a335fc0f5ac331e8d22ca94123b654b",
"installed_by": ["modules"]
},
"bcftools/merge": {
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},
"gatk4/determinegermlinecontigploidy": {
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},
"gatk4/filtermutectcalls": {
Expand All @@ -178,7 +178,7 @@
},
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},
"gatk4/intervallisttools": {
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},
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"haplocheck": {
Expand Down Expand Up @@ -309,42 +309,42 @@
},
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"qualimap/bamqc": {
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},
"rtgtools/format": {
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},
"rtgtools/vcfeval": {
Expand All @@ -389,7 +389,7 @@
},
"samtools/sort": {
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"samtools/stats": {
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},
"stranger": {
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},
"tabix/bgzip": {
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10 changes: 5 additions & 5 deletions modules/nf-core/bcftools/annotate/main.nf
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2 changes: 1 addition & 1 deletion modules/nf-core/bcftools/filter/main.nf
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4 changes: 4 additions & 0 deletions modules/nf-core/bcftools/filter/meta.yml
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52 changes: 43 additions & 9 deletions modules/nf-core/bcftools/filter/tests/main.nf.test
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45 changes: 45 additions & 0 deletions modules/nf-core/bcftools/filter/tests/main.nf.test.snap
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2 changes: 2 additions & 0 deletions modules/nf-core/gatk4/determinegermlinecontigploidy/main.nf
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