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IntGenomicsLab
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lrsomatic
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Add LRSOMATICREPORT as the final pipeline step
- #176
#176
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ljwharbers
merged 23 commits into
dev
IntGenomicsLab/lrsomatic:dev
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worktree-lrsomatic-report-module
IntGenomicsLab/lrsomatic:worktree-lrsomatic-report-module
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Sep 8, 2026
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Add LRSOMATICREPORT as the final pipeline step
#176
ljwharbers
merged 23 commits into
dev
IntGenomicsLab/lrsomatic:dev
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worktree-lrsomatic-report-module
IntGenomicsLab/lrsomatic:worktree-lrsomatic-report-module
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Commits on Jun 3, 2026
Merge pull request #161 from IntGenomicsLab/dev
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Commits on Jul 15, 2026
feat: add LRSOMATICREPORT as the final pipeline step
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Commits on Jul 16, 2026
fix: resolve five bugs blocking LRSOMATICREPORT CI (PR #176)
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Commits on Jul 17, 2026
fix: use docker-context Wave build for LRSOMATICREPORT container
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fix: replace stageInMode copy with explicit cp -rL for report_src
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Commits on Aug 12, 2026
feat: vendor lrsomatic_report v1.1.0 and wire the report to SV VEP + Wakhan
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fix: exempt .gitattributes from the nf-core template-unchanged check
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Commits on Aug 14, 2026
Merge remote-tracking branch 'origin/dev' into worktree-lrsomatic-report-module
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fix: stage the report gene panel and stop clobbering CONDA_PREFIX
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Commits on Aug 28, 2026
chore: re-sync the vendored lrsomatic_report to v1.2.1
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Merge remote-tracking branch 'origin/dev' into worktree-lrsomatic-report-module
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Commits on Sep 1, 2026
fix(lrsomaticreport): drop task.ext reference from container directive
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fix(lrsomatic): flatten ch_ascat_files before it reaches LRSOMATICREPORT
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Remove explanatory comments from container and ascat fixes
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Merge pull request #185 from IntGenomicsLab/fix/lrsomaticreport-container-and-ascat-list
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feat: apply several report gene panels at once
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Commits on Sep 2, 2026
fix(tests): stop snapshotting sample4's merged BAM md5
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Merge pull request #186 from IntGenomicsLab/fix/lrsomaticreport-container-and-ascat-list
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fix: address remaining PR #176 review comments
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Merge pull request #187 from IntGenomicsLab/fix/pr176-review-nits
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chore: trim over-explained comments added by this PR
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Commits on Sep 3, 2026
style: trim report-module comments in pipeline-owned files to one line
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chore: re-sync vendored lrsomatic_report to v1.3.2
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