I've read about CDT packages for building and requiring the library to be present on the install host but I did not find any official documentation.
@jpfeuffer , for OpenGL packages you will need to use the extended container image, https://bioconda.github.io/contributor/troubleshooting.html#using-the-extended-image. If that doesn't work, then you can add the CDT dependencies in the
build section, e.g. https://github.com/bioconda/bioconda-recipes/blob/fb33b5f0572e44f10ef2d4e27955a22e5b45b6ce/recipes/bandage/meta.yaml.
so one workaround for the
tbl2asn issue that is bedevilling prokka amongst other things is to fake the current time using faketime. I have a PR open to add libfaketime to conda-forge (conda-forge/staged-recipes#10664) - do people think this is an acceptible workaround?
I am trying to update my genenotebook to nodejs version >12.14.0, which requires libstdc++ >= 6.0.20 (GLIBCXX_3.4.20). Apparently the available libstdc++ only goes to GLIBCXX_3.4.13. Any suggestions for a workaround? Have been googling for a day and not found anything helpful.
That seems related indeed, I am building a meteor.js app, which ships its own nodejs. Looking into whether this can be overridden.
PR ready for review: bioconda/bioconda-recipes#19923
Can someone explain why pysam is not available in python3.8? The meta.yaml doesn't seem to specify a max python number, and as far as I understand none of its dependencies make use of python, so they shouldn't be blocking it. Their newest release 0.15.4 should be python3.8-friendly. What am I missing? :expressionless:
Many conda-forge packages have been migrated, they're nearing the end. See https://conda-forge.org/status/
Hi bioconda people... so I got
libfaketime into conda-forge which lets me fake the current time and make tbl2asn work - the only place to get an old tbl2asn binary, though, is by unpacking a bioconda package, as implemented e.g. here: https://github.com/audy/tbl2asn-forever/blob/master/Dockerfile
I could bump the build number and build a new bioconda recipe around this but that is rather a hack - what do people think? the other alternative is to not touch the existing message and patch users of this took (such as prokka).