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CoBrALab
/
qbatch
The Unlicense
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Implement "batch system options" environment variable
#74
gdevenyi
closed
7 years ago
4
Tests not assigning all environment variables, possibly allowing for undefined test results
#73
gdevenyi
closed
8 years ago
2
Handle cases of number of commands less than chunks, and single commands
#72
gdevenyi
closed
8 years ago
0
Should dry-run ignore preflight tests?
#71
gdevenyi
closed
8 years ago
1
Make pep8 tests a warning rather than a fail for travis?
#70
gdevenyi
closed
8 years ago
3
Increase verbosity of dry run
#69
gdevenyi
closed
8 years ago
0
Turn ignore environment variables into pattern matching to ignore all bash functions
#68
gdevenyi
closed
8 years ago
0
Turn ignore environment variables into pattern matching to ignore all bash functions
#67
gdevenyi
closed
8 years ago
1
Really fix SGE walltime this time
#66
gdevenyi
closed
8 years ago
0
Fix walltime specification for SGE
#65
gdevenyi
closed
8 years ago
0
Handle special case of len(commands) == 1 and len(commands) < chunk_size
#64
gdevenyi
closed
8 years ago
3
Should qbatch outputs (such as verbose) be to stderr or stdout?
#63
gdevenyi
closed
8 years ago
1
ARRAY_IND should be set with the value of the job array index
#62
pipitone
closed
8 years ago
1
Syntax error near unexpected token '(' from export of BASH_FUNC_module()
#61
edickie
closed
8 years ago
18
Todo: slurm support
#60
gdevenyi
closed
6 years ago
1
Todo: xgrid support
#59
gdevenyi
closed
8 years ago
1
Support pexec?
#58
gdevenyi
closed
8 years ago
1
Check for gnuisms
#57
gdevenyi
closed
8 years ago
23
Allow for other shells
#56
gdevenyi
closed
7 years ago
6
Attempt python3 compliance/tests
#55
gdevenyi
closed
8 years ago
4
Add preflight check for required programs
#54
gdevenyi
closed
8 years ago
4
Fix list expansion of SGE -hold_jid
#53
gdevenyi
closed
8 years ago
1
Fix doubled prefix for SGE walltime specification
#52
gdevenyi
closed
8 years ago
0
WIP: Initial LSF support, based on hacked LSF in original qbatch, untested
#51
gdevenyi
opened
8 years ago
4
Support other script formats?
#50
gdevenyi
closed
8 years ago
2
Some cosmetic changes to the UI
#49
pipitone
closed
8 years ago
11
1.0 release
#48
pipitone
closed
8 years ago
13
Preflight check for parallel and other dependencies
#47
pipitone
closed
8 years ago
1
Incorporate pbs_jobnames into qbatch
#46
pipitone
closed
8 years ago
3
Change travis image to link to travis build page
#45
gdevenyi
closed
8 years ago
0
Enable verbose parallel
#44
gdevenyi
closed
8 years ago
7
Fix exit codes
#43
gdevenyi
closed
8 years ago
0
parallel should be more verbose?
#42
gdevenyi
closed
8 years ago
1
Enable --afterok_pattern for gridengine
#41
pipitone
closed
8 years ago
2
Should qbatch read from STDIN if a file isn't specified?
#40
pipitone
closed
8 years ago
1
Remove bash login flag from scripts?
#39
gdevenyi
closed
8 years ago
2
Check for nonsense numerical options?
#38
gdevenyi
closed
8 years ago
10
Python 3 compliance
#37
pipitone
closed
8 years ago
1
Include a rundown of our terms in the README
#36
pipitone
closed
8 years ago
0
Ability to submit a single command like sge_batch
#35
pipitone
closed
6 years ago
15
Add setup.py
#34
pipitone
closed
8 years ago
4
More readable script templating
#33
pipitone
closed
8 years ago
3
Create tests
#32
pipitone
closed
8 years ago
7
pbs_jobnames should use modern interfaces for getting qstat -x
#31
gdevenyi
closed
8 years ago
1
Dry run should be a bit more verbose
#30
gdevenyi
closed
8 years ago
4
SGE parallel environment needs to be configurable
#29
gdevenyi
closed
8 years ago
0
Passing qsub options should be easier
#28
pipitone
closed
8 years ago
1
Exit with error if qsub returns error
#27
gdevenyi
closed
8 years ago
0
The logdir should depend on the working directory by default
#26
pipitone
closed
8 years ago
0
Manage job environment sensibly
#25
pipitone
closed
8 years ago
5
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