Build test failing on OS X with Conda #6
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kbseah
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Jun 19, 2023
Skip OS X for now because build test failing, see GATB/short_read_connector#6
kbseah
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Jun 20, 2023
* Update short-read-connector to v1.2.0 * Change source URL to GitHub, INRIA server from v1.1.3 not reachable * Add C++ compiler dependency for build * Main shell script name has changed, update build.sh and tests * Use abbreviation for license; add license_family field * Remove short-read-connector from build blacklist No longer failing when tested locally * Change name to match folder; specify license file * Skip build for OS X Skip OS X for now because build test failing, see GATB/short_read_connector#6 --------- Co-authored-by: Silas Kieser <[email protected]>
kbseah
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Jun 30, 2023
Dependency short-read-connector failing build tests for osx, have not been able to fix it yet (see GATB/short_read_connector#6). Skip osx build for this recipe for the time being
kdm9
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Jun 30, 2023
* Update discosnp recipe with short-read-connector Name for `shortreadconnector` dependency has been changed to `short-read-connector` (see 22889d6) * Skip osx build Dependency short-read-connector failing build tests for osx, have not been able to fix it yet (see GATB/short_read_connector#6). Skip osx build for this recipe for the time being --------- Co-authored-by: Dr. K. D. Murray <[email protected]>
tmaklin
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Jul 8, 2023
* Update discosnp recipe with short-read-connector Name for `shortreadconnector` dependency has been changed to `short-read-connector` (see 22889d6) * Skip osx build Dependency short-read-connector failing build tests for osx, have not been able to fix it yet (see GATB/short_read_connector#6). Skip osx build for this recipe for the time being --------- Co-authored-by: Dr. K. D. Murray <[email protected]>
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I'm trying to update the Bioconda recipe for short-read-connector because it is a dependency of DiscoSnp, which I would like to incorporate into a workflow. However, the latest Bioconda recipe for short-read-connector is for v1.1.3, and is also build-blacklisted. Although the discosnp Bioconda recipe doesn't pin a specific version, it appears to require v1.2.0 because the DiscoSnpRad cookbook refers to
short_read_connector_linker.sh.I updated the Bioconda recipe and build.sh for short-read-connector (bioconda/bioconda-recipes#40889), but the build test on OS X is failing at the simple_test.
Unfortunately I'm not able to test the OS X build locally to troubleshoot.
Does your team possibly have some insight into what is happening? Thanks for your help.
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