fix: docker/umap/Dockerfile to reduce vulnerabilities #899
kevin-bentonbuild-and-test.yaml
on: push
call-build
/
list-images
13s
Matrix: call-build / build-images
Matrix: call-test / sprocket_test
Annotations
1 error and 56 warnings
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call-test / sprocket_test (./tools/gatk4.wdl, sprocket)
Process completed with exit code 1.
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call-build / list-images
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/pandas)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/pandas)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-build / build-images (docker/bwa)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/bwa)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-build / build-images (docker/util)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/util)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-build / build-images (docker/python-plotting)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/python-plotting)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-build / build-images (docker/minfi)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/minfi)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-build / build-images (docker/umap)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4, docker/build-push-action@v6, docker/setup-buildx-action@v3, docker/setup-qemu-action@v3, github/codeql-action/upload-sarif@v3. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-build / build-images (docker/umap)
CodeQL Action v3 will be deprecated in December 2026. Please update all occurrences of the CodeQL Action in your workflow files to v4. For more information, see https://github.blog/changelog/2025-10-28-upcoming-deprecation-of-codeql-action-v3/
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call-test / list-files
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/general/bam-to-fastqs.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/bwa.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/dnaseq/dnaseq-standard-fastq.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/qc/quality-check-standard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/methylation/methylation-preprocess.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/rnaseq/rnaseq-variant-calling.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/reference/bwa-db-build.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/general/alignment-post.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/reference/star-db-build.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/methylation/methylation-cohort.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/rnaseq/rnaseq-standard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/general/samtools-merge.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/methylation/methylation-standard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/rnaseq/rnaseq-standard-fastq.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/fastqc.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/dnaseq/dnaseq-core.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/rnaseq/rnaseq-core.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/reference/qc-reference.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/fq.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/reference/gatk-reference.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/qualimap.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./data_structures/read_group.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/sambamba.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/qc/markdups-post.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/librarian.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/mosdepth.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/star.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/chipseq/chipseq-standard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/arriba.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./workflows/dnaseq/dnaseq-standard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/htseq.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/multiqc.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/fastp.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/gatk4.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/samtools.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/util.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/deeptools.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./data_structures/flag_filter.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/md5sum.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/kraken2.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/picard.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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call-test / sprocket_test (./tools/ngsderive.wdl, sprocket)
Node.js 20 is deprecated. The following actions target Node.js 20 but are being forced to run on Node.js 24: actions/checkout@v4. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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stjudecloud~workflows~8ZAQ5I.dockerbuild
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stjudecloud~workflows~KZRMPM.dockerbuild
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