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Fix GHA: remove XGR from Remotes, fix NOTT2019 seqnames bug #7

Fix GHA: remove XGR from Remotes, fix NOTT2019 seqnames bug

Fix GHA: remove XGR from Remotes, fix NOTT2019 seqnames bug #7

Triggered via push March 14, 2026 14:20
Status Failure
Total duration 10m 41s
Artifacts 3

rworkflows.yml

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Matrix: rworkflows
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33 errors and 20 warnings
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AxiosError: Request failed with status code 403
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[Workflow Telemetry] AxiosError
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Process completed with exit code 1.
windows-latest (auto)
R CMD check found ERRORs
windows-latest (auto)
Packages suggested but not available: 'XGR', 'haploR'
ubuntu-latest (auto)
Error: connect ECONNREFUSED 127.0.0.1:7777
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[Workflow Telemetry] Error
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[Workflow Telemetry] Unable to report stat collector result
ubuntu-latest (auto)
Error: connect ECONNREFUSED 127.0.0.1:7777
ubuntu-latest (auto)
[Workflow Telemetry] Error
ubuntu-latest (auto)
[Workflow Telemetry] Unable to finish stat collector
ubuntu-latest (auto)
Process completed with exit code 1.
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AxiosError: Request failed with status code 403
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[Workflow Telemetry] AxiosError
macOS-latest (auto)
[Workflow Telemetry] getStackedAreaGraph {"options":{"width":1000,"height":500,"xAxis":{"label":"Time"},"yAxis":{"label":"Memory Usage (MB)"},"timeTicks":{"unit":"auto"}},"areas":[{"label":"Used","color":"#377eb899","points":[{"x":1773498032761,"y":2920.859375},{"x":1773498037758,"y":2911.984375},{"x":1773498042761,"y":2884.625},{"x":1773498047756,"y":2903.171875},{"x":1773498052759,"y":2884.0625},{"x":1773498057759,"y":2885.1875},{"x":1773498062757,"y":2811.640625},{"x":1773498067757,"y":2842.15625},{"x":1773498072754,"y":2781.484375},{"x":1773498077759,"y":2842.375},{"x":1773498082758,"y":2874.828125},{"x":1773498087758,"y":2587.6875},{"x":1773498092757,"y":2887.1875},{"x":1773498097756,"y":2848.796875},{"x":1773498102760,"y":2911.5625},{"x":1773498107757,"y":1316.0625},{"x":1773498112755,"y":1620.734375},{"x":1773498117758,"y":1575.15625},{"x":1773498122756,"y":1820.203125},{"x":1773498127760,"y":1924.53125},{"x":1773498132756,"y":1926.421875},{"x":1773498137755,"y":1962.125},{"x":1773498142762,"y":1978.25},{"x":1773498147757,"y":2291.046875},{"x":1773498152757,"y":2409.84375},{"x":1773498157757,"y":2538.46875},{"x":1773498162757,"y":2529.0625},{"x":1773498167756,"y":2533.78125},{"x":1773498172756,"y":2534.859375},{"x":1773498177756,"y":2502.90625},{"x":1773498182757,"y":1611.65625},{"x":1773498187755,"y":1758.1875},{"x":1773498192756,"y":1689.015625},{"x":1773498197756,"y":1691.578125},{"x":1773498202756,"y":1691.046875},{"x":1773498207756,"y":1694.296875},{"x":1773498212756,"y":1762.296875},{"x":1773498217756,"y":1786.640625},{"x":1773498222757,"y":1819.15625},{"x":1773498227757,"y":1844.265625},{"x":1773498232754,"y":1861.390625},{"x":1773498237757,"y":1848.90625},{"x":1773498242755,"y":1863.421875},{"x":1773498247756,"y":1907.765625},{"x":1773498252757,"y":1954.0625},{"x":1773498257756,"y":1963.71875},{"x":1773498262756,"y":1958.71875},{"x":1773498267757,"y":1975.078125},{"x":1773498272758,"y":1978.6875},{"x":1773498277757,"y":1977.71875},{"x":1773498282756,"y":1998.171875},{"x":1773498287756,"y":2017},{"x":1773498292756,"y":1992.859375},{"x":1773498297757,"y":1996.046875},{"x":1773498302756,"y":1998.03125},{"x":1773498307756,"y":2005.265625},{"x":1773498312758,"y":1890.90625},{"x":1773498317754,"y":1837.859375},{"x":1773498322756,"y":1844.984375},{"x":1773498327756,"y":1870},{"x":1773498332759,"y":1866.203125},{"x":1773498337756,"y":1868.765625},{"x":1773498342757,"y":1886.53125},{"x":1773498347755,"y":1599.328125},{"x":1773498352759,"y":1755.703125},{"x":1773498357757,"y":1838.796875},{"x":1773498362756,"y":1973.15625},{"x":1773498367758,"y":2061.75},{"x":1773498372757,"y":2256.171875},{"x":1773498377757,"y":2272.109375},{"x":1773498382756,"y":2318.59375},{"x":1773498387762,"y":2520.125},{"x":1773498392766,"y":2380.65625},{"x":1773498397759,"y":2390.359375},{"x":1773498402757,"y":2459.3125},{"x":1773498407755,"y":2800.515625},{"x":1773498412757,"y":2625.96875},{"x":1773498417755,"y":2451.65625},{"x":1773498422763,"y":2153.890625},{"x":1773498427756,"y":2355.09375},{"x":1773498432756,"y":2309.515625},{"x":1773498437756,"y":2345.671875},{"x":1773498442757,"y":2334},{"x":1773498447754,"y":2358.234375},{"x":1773498452759,"y":2290.609375},{"x":1773498457757,"y":2361.984375},{"x":1773498462755,"y":2455.359375},{"x":1773498467755,"y":2511},{"x":1773498472756,"y":2549.46875},{"x":1773498477757,"y":2753.453125},{"x":1773498482756,"y":2771.859375},{"x":1773498487756,"y":2614.765625},{"x":1773498492770,"y":2723.859375},{"x":1773498497758,"y":2641.109375},{"x":1773498502757,"y":2594.96875},{"x":1773498507756,"y":2654},{"x":1773498512758,"y":1423.21875},{"x":1773498517756,"y":1460.59375},{"x":1773498522757,"y":1498.78125},{"x":1773498527755,"y":1532.9375},{"x":1773498532756,"y":2648.140625},{"x":1773498537758,"y":2662.375},{"x":1773498542762,"y":2259.765625},{"x":1773498547759,"y":2603.265625},{"x":1773498552759,"y":2186.75},{"x":1773498557766,"y":2605.828125},{"x":1773498562757,"y":1317.484375},{"x":1773498567754,"y":1498.796875},{"x":1773498572755,"y":1796.015625},{"x":1773498577761,"y":2049.296875},{"x":1773498582756,"y":
macOS-latest (auto)
AxiosError: Request failed with status code 403
macOS-latest (auto)
[Workflow Telemetry] AxiosError
macOS-latest (auto)
[Workflow Telemetry] getStackedAreaGraph {"options":{"width":1000,"height":500,"xAxis":{"label":"Time"},"yAxis":{"label":"CPU Load (%)"},"timeTicks":{"unit":"auto"}},"areas":[{"label":"User Load","color":"#e41a1c99","points":[{"x":1773498032761,"y":22.799146385795197},{"x":1773498037758,"y":47.179827471798276},{"x":1773498042761,"y":41.11334674714956},{"x":1773498047756,"y":38.22937625754527},{"x":1773498052759,"y":50.466045272969374},{"x":1773498057759,"y":40.50972501676727},{"x":1773498062757,"y":62.02783300198808},{"x":1773498067757,"y":52.2438044206296},{"x":1773498072754,"y":31.99732798931196},{"x":1773498077759,"y":33.311125916055964},{"x":1773498082758,"y":20.29372496662216},{"x":1773498087758,"y":26.35090060040027},{"x":1773498092757,"y":32.90627107215104},{"x":1773498097756,"y":22.66042780748663},{"x":1773498102760,"y":24.966622162883844},{"x":1773498107757,"y":25.985303941215765},{"x":1773498112755,"y":14.476317545030021},{"x":1773498117758,"y":18.779031187790313},{"x":1773498122756,"y":13.302139037433156},{"x":1773498127760,"y":26.054922973878096},{"x":1773498132756,"y":19.050802139037433},{"x":1773498137755,"y":27.785145888594165},{"x":1773498142762,"y":25.80862533692722},{"x":1773498147757,"y":18.779342723004692},{"x":1773498152757,"y":16.387959866220736},{"x":1773498157757,"y":8.768406961178044},{"x":1773498162757,"y":11.97324414715719},{"x":1773498167756,"y":13.703208556149733},{"x":1773498172756,"y":14.63903743315508},{"x":1773498177756,"y":14.65863453815261},{"x":1773498182757,"y":12.741827885256837},{"x":1773498187755,"y":25.386165211551376},{"x":1773498192756,"y":11.311914323962517},{"x":1773498197756,"y":19.41294196130754},{"x":1773498202756,"y":49.2},{"x":1773498207756,"y":49.69859343603483},{"x":1773498212756,"y":42.371752165223185},{"x":1773498217756,"y":55.213903743315505},{"x":1773498222757,"y":50.56628914057295},{"x":1773498227757,"y":54.10821643286573},{"x":1773498232754,"y":36.229946524064175},{"x":1773498237757,"y":16.23246492985972},{"x":1773498242755,"y":45.89178356713427},{"x":1773498247756,"y":38.5437541750167},{"x":1773498252757,"y":23.22623828647925},{"x":1773498257756,"y":11.634162743779422},{"x":1773498262756,"y":8.18242790073776},{"x":1773498267757,"y":9.145931405514458},{"x":1773498272758,"y":8.18242790073776},{"x":1773498277757,"y":17.43796109993293},{"x":1773498282756,"y":9.619238476953909},{"x":1773498287756,"y":16.532797858099062},{"x":1773498292756,"y":9.12751677852349},{"x":1773498297757,"y":12.080536912751679},{"x":1773498302756,"y":12.851405622489958},{"x":1773498307756,"y":11.53068105192178},{"x":1773498312758,"y":10.726182544970019},{"x":1773498317754,"y":20.87837837837838},{"x":1773498322756,"y":11.685695097380792},{"x":1773498327756,"y":9.469442578912021},{"x":1773498332759,"y":11.543624161073826},{"x":1773498337756,"y":9.011432414256893},{"x":1773498342757,"y":11.163416274377942},{"x":1773498347755,"y":16.03206412825651},{"x":1773498352759,"y":28.83845126835781},{"x":1773498357757,"y":25.16778523489933},{"x":1773498362756,"y":34.13493653974616},{"x":1773498367758,"y":36.27254509018036},{"x":1773498372757,"y":30.365448504983387},{"x":1773498377757,"y":11.43048128342246},{"x":1773498382756,"y":18.55324849296718},{"x":1773498387762,"y":21.8},{"x":1773498392766,"y":15.318302387267904},{"x":1773498397759,"y":9.335124244459369},{"x":1773498402757,"y":24.983255190890823},{"x":1773498407755,"y":33},{"x":1773498412757,"y":41.56104069379587},{"x":1773498417755,"y":67.94701986754967},{"x":1773498422763,"y":51.28543177323665},{"x":1773498427756,"y":53.73134328358209},{"x":1773498432756,"y":54.70941883767535},{"x":1773498437756,"y":35.24699599465955},{"x":1773498442757,"y":25.78700602813128},{"x":1773498447754,"y":28.847435043304465},{"x":1773498452759,"y":46.74278038952317},{"x":1773498457757,"y":56.00801068090788},{"x":1773498462755,"y":63.812709030100336},{"x":1773498467755,"y":67.5783855903936},{"x":1773498472756,"y":62.33333333333333},{"x":1773498477757,"y":65.20292747837658},{"x":1773498482756,"y":79.48378557246856},{"x":1773498487756,"y":82.38063214525891},{"x":1773498492770,
macOS-latest (auto)
AxiosError: Request failed with status code 403
macOS-latest (auto)
[Workflow Telemetry] AxiosError
macOS-latest (auto)
Process completed with exit code 1.
macOS-latest (auto)
R CMD check found ERRORs
macOS-latest (auto)
Packages suggested but not available: 'XGR', 'haploR'
windows-latest (auto)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/checkout@v4, actions/upload-artifact@v4, catchpoint/workflow-telemetry-action@v2, r-lib/actions/setup-pandoc@v2, r-lib/actions/setup-r@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh37'
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh37'
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh37'
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh38'
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh38'
windows-latest (auto)
replacing previous import 'utils::findMatches' by 'S4Vectors::findMatches' when loading 'SNPlocs.Hsapiens.dbSNP144.GRCh38'
windows-latest (auto)
file 'echoconda/configure' did not have execute permissions: corrected
windows-latest (auto)
dependencies 'BiocVersion', 'BiocStyle' are not available
ubuntu-latest (auto)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/checkout@v4, actions/upload-artifact@v4, catchpoint/workflow-telemetry-action@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
macOS-latest (auto)
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/cache@v4, actions/checkout@v4, actions/upload-artifact@v4, catchpoint/workflow-telemetry-action@v2, r-lib/actions/setup-pandoc@v2, r-lib/actions/setup-r@v2. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh38’
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh38’
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh38’
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh37’
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh37’
macOS-latest (auto)
replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘SNPlocs.Hsapiens.dbSNP144.GRCh37’
macOS-latest (auto)
dependencies ‘BiocVersion’, ‘BiocStyle’ are not available
macOS-latest (auto)
fribidi 1.0.16 is already installed and up-to-date. To reinstall 1.0.16, run: brew reinstall fribidi
macOS-latest (auto)
harfbuzz 12.3.2 is already installed and up-to-date. To reinstall 12.3.2, run: brew reinstall harfbuzz

Artifacts

Produced during runtime
Name Size Digest
Linux-biocversion-devel-r-auto-results
4.26 MB
sha256:18e414d5075fc8c0db2d3cac06380c0a484565b05566bd918c26ed4fdc9b4bb5
Windows-biocversion-release-r-auto-results
4.3 MB
sha256:0e79c0c4166d751ccea9b2e176734178a362ad8b36d54ec0ca7d11f3abbbb1bc
macOS-biocversion-release-r-auto-results
4.29 MB
sha256:decfae2c151ccb672fe47d7ae3e36156a0f117dcfb68f00c8a3832851df73dc5