rescalante-lilly ruffus issues

rescalante-lilly / ruffus

Automatically exported from code.google.com/p/ruffus

MIT License

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v2.6.3 ignores the flag files used with @check_if_uptodate and runs the task regardless

#77 GoogleCodeExporter opened 9 years ago
0
@split and @subdivide not computing output files correctly

#76 GoogleCodeExporter closed 9 years ago
6
@jobs_limit does not override multiprocessing limit

#75 GoogleCodeExporter closed 9 years ago
2
PDF graph output fails

#74 GoogleCodeExporter closed 9 years ago
8
output_dir parameter for @transform to specify default output directory

#73 GoogleCodeExporter opened 9 years ago
1
Python3 - pipeline_printout_graph

#72 GoogleCodeExporter closed 9 years ago
1
Mark certain output from jobs as "dead ends" which should not proceed further

#71 GoogleCodeExporter opened 9 years ago
0
Does killing parallel processes explicitly via kill or qdel cause the job to "fail"

#70 GoogleCodeExporter closed 9 years ago
1
@mkdir results in an Uncaught (fatal) exception if the directory already exists

#69 GoogleCodeExporter closed 9 years ago
1
Allow "extra" parameters to be used in output substitution

#68 GoogleCodeExporter opened 9 years ago
0
Mark input strings so they are not checked as filenames

#67 GoogleCodeExporter opened 9 years ago
1
Print list of tasks

#66 GoogleCodeExporter closed 9 years ago
1
Verbosity for pipeline_printout and pipeline_run is a mess

#65 GoogleCodeExporter closed 9 years ago
3
pipeline_printout_graph fails to generate figures for recent versions of Graphviz

#64 GoogleCodeExporter closed 9 years ago
2
failed installation with pip

#63 GoogleCodeExporter closed 9 years ago
4
@active_if produces incorrect output with pipeline_printout(verbose == 3)

#62 GoogleCodeExporter closed 9 years ago
0
wishlist: Ruffus 2.3 release

#61 GoogleCodeExporter closed 9 years ago
1
Can't pickle code objects

#60 GoogleCodeExporter closed 9 years ago
2
.ruffus_history.sqlite locked on shared network drive

#59 GoogleCodeExporter closed 9 years ago
2
Where is 2.3b1 install for Windows?

#58 GoogleCodeExporter closed 9 years ago
2
UnboundLocalError: local variable 'pool' referenced before assignment

#57 GoogleCodeExporter closed 9 years ago
2
Ruffus FAQ does not give citation information

#56 GoogleCodeExporter closed 9 years ago
1
Ruffus randomly hanging on last jobs of a task

#55 GoogleCodeExporter closed 9 years ago
2
Support for python 3

#54 GoogleCodeExporter closed 9 years ago
9
Allow a function to generate output paths from input paths instead of regex

#53 GoogleCodeExporter opened 9 years ago
1
@mkdir decorator

#52 GoogleCodeExporter closed 9 years ago
1
Run split in parallell

#51 GoogleCodeExporter opened 9 years ago
6
Tutorial should contain example code as text instead of as images.

#50 GoogleCodeExporter closed 9 years ago
4
cd docs; make html tries to rsync after making the html docs

#49 GoogleCodeExporter closed 9 years ago
1
Code template does not run

#48 GoogleCodeExporter closed 9 years ago
2
MissingInputFile thrown, pipeline hangs, never exits or proceeds

#47 GoogleCodeExporter closed 9 years ago
2
@files decorator with task argument requires output parameter

#46 GoogleCodeExporter closed 9 years ago
4
@split operations don't show the 1->many output

#45 GoogleCodeExporter closed 9 years ago
1
Fold in "boilerplate code" for Ruffus

#44 GoogleCodeExporter closed 9 years ago
1
Early exception / error reporting

#43 GoogleCodeExporter closed 9 years ago
2
[deleted issue]

#42 GoogleCodeExporter closed 9 years ago
0
@retry_on_error(NUM_OF_RETRIES)

#41 GoogleCodeExporter opened 9 years ago
2
Depth first execution of Ruffus

#40 GoogleCodeExporter opened 9 years ago
1
Non-decorator / Function interface to Ruffus

#39 GoogleCodeExporter opened 9 years ago
1
Cleanup created files

#38 GoogleCodeExporter opened 9 years ago
1
Tag invocations of pipeline_run

#37 GoogleCodeExporter opened 9 years ago
0
@active_if(CONDITIONAL)

#36 GoogleCodeExporter closed 9 years ago
2
Let @split returns the names of output files created rather than via "globs"

#35 GoogleCodeExporter opened 9 years ago
0
Clearer decorators

#34 GoogleCodeExporter closed 9 years ago
1
Typographic errors in the Ruffus online documentation

#33 GoogleCodeExporter closed 9 years ago
1
Standard parsable format for reporting the state of the pipeline

#32 GoogleCodeExporter opened 9 years ago
1
feature request: a command line tool to call ruffus pipelines

#31 GoogleCodeExporter opened 9 years ago
3
@split with empty input files crashes Ruffus

#30 GoogleCodeExporter closed 9 years ago
1
Customisable flowchart appearance

#29 GoogleCodeExporter closed 9 years ago
7
How much of each task is complete

#28 GoogleCodeExporter opened 9 years ago
3