Shaun Jackman

Results 270 comments of Shaun Jackman

> we now have an api for downloading artifactshttps://developer.github.com/v3/actions/artifacts/#download-an-artifact so you could likely accomplish your scenario now. @chrispat Is there an API to get all the workflow runs for a...

```bash pr="$(echo '${{github.event.head_commit.message}}' | sed 's/^.*#\([0-9]*\).*/\1/;q')" git -C "$(brew --repo ${{github.repository}})" fetch origin "pull/$pr/head:pr" sha1="$(git -C "$(brew --repo ${{github.repository}})" rev-parse pr)" echo pr="$pr" sha1="$sha1" run_id=$(curl -s -H 'Accept: application/vnd.github.antiope-preview+json' https://api.github.com/repos/${{github.repository}}/actions/workflows/build-bottles.yml/runs...

```console $ brew linkage --test brewsci/bio/bandage Missing libraries: unexpected (libpango-1.0.so.0) unexpected (libpangocairo-1.0.so.0) unexpected (libpangoft2-1.0.so.0) Unwanted system libraries: /lib/x86_64-linux-gnu/libglib-2.0.so.0 /lib/x86_64-linux-gnu/libgpg-error.so.0 /usr/lib/x86_64-linux-gnu/libgio-2.0.so.0 /usr/lib/x86_64-linux-gnu/libgobject-2.0.so.0 ``` https://github.com/brewsci/homebrew-bio/runs/4780841558?check_suite_focus=true#step:5:102

``` *** Error in `/home/linuxbrew/.linuxbrew/Cellar/perl/5.34.0/bin/perl': munmap_chunk(): invalid pointer: 0x00007f094586b127 *** ======= Backtrace: ========= /lib/x86_64-linux-gnu/libc.so.6(+0x777f5)[0x7f09491dd7f5] /lib/x86_64-linux-gnu/libc.so.6(cfree+0x1a8)[0x7f09491ea6e8] /home/linuxbrew/.linuxbrew/Cellar/perl/5.34.0/lib/perl5/5.34.0/x86_64-linux-thread-multi/CORE/libperl.so(perl_destruct+0x1bcd)[0x7f09495aa74d] /home/linuxbrew/.linuxbrew/Cellar/perl/5.34.0/bin/perl(main+0x111)[0x400f01] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f0949186840] /home/linuxbrew/.linuxbrew/Cellar/perl/5.34.0/bin/perl(_start+0x29)[0x400f79] ``` `munmap_chunk(): invalid pointer` in `perl_destruct` on Linux https://github.com/brewsci/homebrew-bio/pull/1433/checks?check_run_id=3876049589#step:5:333

``` brewsci/bio/maker: * stable sha256 changed without the url/version also changing; please create an issue upstream to rule out malicious circumstances and to find out why the file changed. ```...

I can reproduce the issue locally on both Linux and macOS with `brew audit --online`. ```console $ brew audit --online brewsci/bio/gatk brewsci/bio/gatk: * The homepage URL https://software.broadinstitute.org/gatk is not reachable...

Thanks for the information, Greg! @lbergelson Since you work at the Broad, Louis, feel free to raise this issue with your systems infrastructure department, if you're so inclined. In the...

🎉 New formula arcs in Brewsci/bio for Linux and macOS! 🍺 brew install brewsci/bio/arcs 🏡 https://github.com/bcgsc/arcs 📖 https://doi.org/10.1093/bioinformatics/btx675

🎉 New formula minimap2 in Brewsci/bio for Linux and macOS! 🍺 brew install brewsci/bio/minimap2 🏡 https://github.com/lh3/minimap2 📖 https://arxiv.org/abs/1708.01492

🎉 New formula fastani in Brewsci/bio for Linux and macOS! 🍺 brew install brewsci/bio/fastani 🏡 https://github.com/ParBLiSS/FastANI 📖 https://doi.org/10.1101/225342