bioscons

bioscons copied to clipboard

https://github.com/nhoffman/bioscons/blob/master/CHANGELOG.rst#091-dev

crosenth

Targets.remove_extras(outdir)

4

complement to Targets.show_extras(outdir)

crosenth

multi-step job not being timed

1

When using an action with multiple steps (either ';' or '&&'), only the first command is being timed. By default, 'time' only works on the first command: `/usr/bin/time --verbose ls...

sheenamt

nhoffman

Add default_slurm_ags option to SlurmEnvironment __init__

9

This is handy for submitting `srun` jobs through `salloc`, where the srun commands must all be run with `--ntasks=1` for things to work properly. It's annoying to have to set...

metasoarous

Add ensure_exists option to ensure filesystem is in sync before Command action returns

1

Some of us have noticed that occasionally scons thinks that files have changed and need to rebuild, even when this should not be the case. This can be particularly annoying...

metasoarous

Specifically, ``` targs = Targets(locals().values()) targs.show_extras("outdir") ``` fails with the following trace: ``` ╰➤ sc output scons: Reading SConscript files ... AttributeError: 'Targets' object has no attribute 'targets': File "/home/csmall/code/slurm-scons-debug/SConstruct",...

metasoarous

We should put together a collection of "cookbook" example scripts so novices can get up to speed quickly. I have made an "examples" directory. In examples/SConstruct.drop_seq, I don't understand everything,...

matsen