From 7fe18274a00fa782c316ec3c477a8c047b9dbf71 Mon Sep 17 00:00:00 2001 From: "github-actions[bot]" Date: Tue, 7 Jul 2026 04:25:35 +0000 Subject: [PATCH 1/2] =?UTF-8?q?chore:=20=F0=9F=A4=96=20sync=20copilot=20in?= =?UTF-8?q?structions=20-=202026-07-07?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- .github/copilot-instructions.md | 24 ++++++++++++------------ 1 file changed, 12 insertions(+), 12 deletions(-) diff --git a/.github/copilot-instructions.md b/.github/copilot-instructions.md index 6e04113..84341da 100644 --- a/.github/copilot-instructions.md +++ b/.github/copilot-instructions.md @@ -160,17 +160,17 @@ meets quality standards. ```json { - "Insert CRAFT prompt": { - "prefix": "craft", - "body": [ - "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */", - "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */", - "/* F: Flow: inputs/ -> results/, conf/, tests/ */", - "/* T: Tests: provide a one-line TEST_CMD and expected output */", - "", - "A: $1" - ], - "description": "Insert CRAFT prompt and place cursor at Actions" - } + "Insert CRAFT prompt": { + "prefix": "craft", + "body": [ + "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */", + "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */", + "/* F: Flow: inputs/ -> results/, conf/, tests/ */", + "/* T: Tests: provide a one-line TEST_CMD and expected output */", + "", + "A: $1" + ], + "description": "Insert CRAFT prompt and place cursor at Actions" + } } ``` From 5a8f83b15d15361c4f2fee195b3a0059b6aab122 Mon Sep 17 00:00:00 2001 From: "pre-commit-ci[bot]" <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Tue, 7 Jul 2026 04:26:02 +0000 Subject: [PATCH 2/2] [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci --- .github/PULL_REQUEST_TEMPLATE.md | 2 +- .github/copilot-instructions.md | 24 ++++++++++++------------ 2 files changed, 13 insertions(+), 13 deletions(-) diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md index 65f6ba3..94d9734 100644 --- a/.github/PULL_REQUEST_TEMPLATE.md +++ b/.github/PULL_REQUEST_TEMPLATE.md @@ -18,7 +18,7 @@ when referring to the issue. ## PR Checklist -(~Strikethrough~ any points that are not applicable.) +(~~Strikethrough~~ any points that are not applicable.) - [ ] This comment contains a description of changes with justifications, with any relevant issues linked. - [ ] Update docs if there are any API changes. diff --git a/.github/copilot-instructions.md b/.github/copilot-instructions.md index 84341da..6e04113 100644 --- a/.github/copilot-instructions.md +++ b/.github/copilot-instructions.md @@ -160,17 +160,17 @@ meets quality standards. ```json { - "Insert CRAFT prompt": { - "prefix": "craft", - "body": [ - "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */", - "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */", - "/* F: Flow: inputs/ -> results/, conf/, tests/ */", - "/* T: Tests: provide a one-line TEST_CMD and expected output */", - "", - "A: $1" - ], - "description": "Insert CRAFT prompt and place cursor at Actions" - } + "Insert CRAFT prompt": { + "prefix": "craft", + "body": [ + "/* C: Context: Repo=${workspaceFolderBasename}; bioinformatics pipelines; NIH HPC (Biowulf/Helix); containers: quay.io/ccbr */", + "/* R: Rules: no PHI, no secrets, containerize, pin versions, follow style */", + "/* F: Flow: inputs/ -> results/, conf/, tests/ */", + "/* T: Tests: provide a one-line TEST_CMD and expected output */", + "", + "A: $1" + ], + "description": "Insert CRAFT prompt and place cursor at Actions" + } } ```