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databio
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pypiper
Python toolkit for building restartable pipelines
http://pypiper.databio.org
BSD 2-Clause "Simplified" License
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Python 3 changes the type of filter() from a list like object to an iterator.
#179
jpsmith5
closed
2 years ago
1
Python >= 3.9 breaks the ability to treat .keys() as a list for concatenation.
#178
jpsmith5
closed
2 years ago
1
fix 2to3
#177
nsheff
closed
2 years ago
1
pypiper args not being picked up
#176
vreuter
closed
1 year ago
1
New start should imply checkpoint overwrite
#175
vreuter
closed
1 year ago
2
Overwrite checkpoints when new start is active
#174
vreuter
closed
1 year ago
1
Consider removing -R?
#173
vreuter
closed
3 years ago
4
Docker feature doesn't work on macOS
#172
nsheff
opened
4 years ago
1
compressed output
#171
nsheff
opened
4 years ago
0
Rename 'total elapsed time'
#170
stolarczyk
opened
4 years ago
0
add missing .
#169
fhalbritter
closed
4 years ago
2
Are there any better tutorials that what is present on the pypiper website?
#168
Rob-murphys
closed
1 year ago
4
release to fix dep on logmuse
#167
nsheff
closed
5 years ago
0
python 3 err
#166
nsheff
closed
5 years ago
1
time accumulation from profile is inaccurate
#165
nsheff
opened
5 years ago
6
initialize profile only after first cmd
#164
nsheff
opened
5 years ago
1
unify memory usage logging
#163
stolarczyk
opened
5 years ago
2
eliminate id increment messages
#162
nsheff
opened
5 years ago
0
0.12.0
#161
nsheff
closed
5 years ago
0
SyntaxError on import pypiper; dev branch
#160
stolarczyk
closed
5 years ago
1
docker commands should be smarter about process name in profile
#159
nsheff
opened
5 years ago
0
Logging on manager
#158
vreuter
closed
5 years ago
2
Fix docker permissions, add cwd vol
#157
nsheff
closed
5 years ago
2
use yacman
#156
nsheff
closed
5 years ago
1
bugfix
#155
nsheff
closed
5 years ago
0
Bump attmap for pathex; 0.11.2
#154
vreuter
closed
5 years ago
1
bump attmap?
#153
nsheff
closed
5 years ago
0
Point release?
#152
vreuter
closed
5 years ago
2
follow functions and process ID determination in pipeline rerunning
#151
stolarczyk
closed
5 years ago
1
TypeError in count_reads.py pipeline (python3)
#150
stolarczyk
closed
5 years ago
0
provide super easy logging for pipeline authors
#149
nsheff
opened
5 years ago
2
release 0.11.0
#148
nsheff
closed
5 years ago
6
Updates
#147
nsheff
closed
5 years ago
0
Test errors
#146
vreuter
closed
5 years ago
4
input_to_fastq should output gzipped files
#145
nsheff
closed
5 years ago
1
profile format changes
#144
nsheff
closed
5 years ago
0
cleanups appear to be failing
#143
nsheff
closed
5 years ago
10
adding unique key to profile
#142
nsheff
closed
5 years ago
0
commands.sh page has too many newlines
#141
nsheff
closed
5 years ago
0
readthedocs move
#140
nsheff
closed
5 years ago
1
ngstk simple_frip appears to be returning strange stuff
#139
nsheff
opened
5 years ago
0
restore HTML for finer logo control
#138
vreuter
closed
5 years ago
0
Example pipeline link in docs
#137
vreuter
closed
5 years ago
0
get_proc_name confusion
#136
nsheff
closed
5 years ago
7
Release 0.10
#135
nsheff
closed
5 years ago
2
pre closing tags are incorrect
#134
nsheff
closed
5 years ago
2
pypiper callprint maxmem return type is ambiguous
#133
nsheff
closed
5 years ago
2
Attmap doesn't populate environment variables
#132
nsheff
closed
5 years ago
1
Protect PipelineManager members from API
#131
vreuter
closed
5 years ago
1
Update docstrings for lucidoc/mkdocs autodoc compatibility
#130
vreuter
closed
5 years ago
1
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