Expected behaviour
Building a module with shelley-bio build let's you run the software binary correctly. e.g.
shelley-bio build star
module load star
star
Steps to reproduce error
- Build STAR with shelley-bio works
/usr/lib/python3.10/runpy.py:126: RuntimeWarning: 'shelley_bio.client.cli' found in sys.modules after import of package 'shelley_bio.client', but prior to execution of 'shelley_bio.client.cli'; this may result in unpredictable behaviour
warn(RuntimeWarning(msg))
โน๏ธ Running with elevated privileges: build star
โญโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโ Version Information โโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโฎ
โ โ
โ โน๏ธ Version Selection โ
โ โ
โ Available versions for star: โ
โ โข 2.7.11a--h0033a41_0 โ
โ โข 2.7.11b--h43eeafb_0 โ
โ โข 2.7.11b--h43eeafb_1 โ
โ โข 2.7.11b--h43eeafb_2 โ
โ โข 2.7.11b--h43eeafb_3 โ
โ โข 2.7.11b--h5ca1c30_4 โ
โ โข 2.7.11b--h5ca1c30_5 โ
โ โข 2.7.11b--h5ca1c30_6 โ
โ โข 2.7.11b--h5ca1c30_7 โ
โ โข 2.7.11b--h5ca1c30_8 โ
โ ... and 38 more โ
โ โ
โ โ ๏ธ No version specified โ
โ Building latest version: 2.7.11a--h0033a41_0 โ
โ โ
โ To specify a version: โ
โ shelley-bio build star/2.7.11a--h0033a41_0 โ
โ โ
โฐโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโฏ
โโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโ
โญโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโ Build Complete โโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโฎ
โ โ
โ โ
Module Built Successfully! โ
โ โ
โ Tool: star โ
โ Version: 2.7.11a--h0033a41_0 โ
โ Module Path: /apps/Modules/modulefiles/star/2.7.11a--h0033a41_0.lua โ
โ โ
โ To load this module: โ
โ module load star/2.7.11a--h0033a41_0 โ
โ โ
โ To list all modules: โ
โ module avail โ
โ โ
โฐโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโโฏ
------------------------------------------------------------------------------------------ /apps/Modules/modulefiles -------------------------------------------------------------------------------------------
R/4.1.2 ansible/2.10.8 jupyter/2024.10 nextflow/24.10.2 nf-core/3.5.2 rstudio/2023.12.1 snakemake/6.15.1 star/2.7.11a--h0033a41_0
------------------------------------------------------------------------------------------- /opt/Modules/modulefiles -------------------------------------------------------------------------------------------
shpc singularity
Use "module spider" to find all possible modules.
Use "module keyword key1 key2 ..." to search for all possible modules matching any of the "keys".
- Module loads, but does not find the star binary
FATAL: "star": executable file not found in $PATH
Expected behaviour
Building a module with
shelley-bio buildlet's you run the software binary correctly. e.g.Steps to reproduce error
FATAL: "star": executable file not found in $PATH