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v1.7.0 release PR #187

Merged
merged 32 commits into from
Aug 9, 2024
Merged

v1.7.0 release PR #187

merged 32 commits into from
Aug 9, 2024

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nvnieuwk
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@nvnieuwk nvnieuwk commented Aug 9, 2024

PR checklist

  • This comment contains a description of changes (with reason).
  • If you've fixed a bug or added code that should be tested, add tests!
  • If you've added a new tool - have you followed the pipeline conventions in the contribution docs
  • Make sure your code lints (nf-core lint).
  • Ensure the test suite passes (nf-test test main.nf.test -profile test,docker).
  • Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
  • Usage Documentation in docs/usage.md is updated.
  • Output Documentation in docs/output.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).

nvnieuwk and others added 30 commits February 27, 2024 14:44
@nvnieuwk
Template update for nf-core/tools version 2.13
90ac8a7
@nvnieuwk
bump back to dev
7197e41
@nvnieuwk
Template update for nf-core/tools version 2.14.1
c547db1
@nvnieuwk
Merge branch 'TEMPLATE' into template-v2.14
3d5d1b3
@nvnieuwk
Merge branch 'TEMPLATE' into template-v2.14
0675781
@nvnieuwk
ignore cff file for eclint
085a7ba
@nvnieuwk
fix some issues
754f552
@nvnieuwk
fix input schema
26972f0
@nvnieuwk
Merge pull request #178 from nf-cmgg/template-v2.14
790cda9 
Template v2.14.1
@nvnieuwk
add nft-bam to germline
2400611
@nvnieuwk
eclint
43293f3
@nvnieuwk
bump nft-bam version
90a0244
@nvnieuwk
Merge pull request #179 from nf-cmgg/add-nft-bam
62ced4c 
add nft-bam to germline
@nvnieuwk
edit automap outdir
566ce0c
@nvnieuwk
use sample id for automap individuals
13c1ea4
@nvnieuwk
remove view statements
ed11b25
@nvnieuwk
fix tests
a2224a2
@nvnieuwk
update changelog
7f36cda
@nvnieuwk
improve ped handling
0e4f339
@nvnieuwk
add a check to see if there is a ped file for the family
1c41bfe
@nvnieuwk
add a check to see if there is a ped file for the family
9d7f9c6
@nvnieuwk
remove fastqc artifacts
c82166a
@nvnieuwk
appease eclint
724923d
@nvnieuwk
Merge pull request #184 from nf-cmgg/fix/automap-updio-issues
55a68ab 
Fix/automap updio issues
@nvnieuwk
phasing is now an option
5b05924
@nvnieuwk
update changelog
2492854
@nvnieuwk
remove WES and WGS profiles
8c84153
@nvnieuwk
Merge pull request #185 from nf-cmgg/improvement/ped-handling
0c473ec 
Improve ped handling
@nvnieuwk
Merge pull request #186 from nf-cmgg/feat/phasing-option
db609fd 
Add a phasing option + remove WES & WGS profiles
@nvnieuwk
bump to v1.7.0
750138f
@nvnieuwk nvnieuwk merged commit 6f4476f into master Aug 9, 2024
62 of 64 checks passed
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@matthdsm matthdsm matthdsm approved these changes

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@nvnieuwk @matthdsm