Mouse-Imaging-Centre pydpiper issues

Mouse-Imaging-Centre / pydpiper

Python code for flexible pipeline control

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Re: Link not working

#467 nmskhan opened 1 year ago
2
compatibility with local and Compute Canada installations (qsub not found)

#466 andrewcyung opened 1 year ago
1
Better quoting

#465 bcdarwin opened 2 years ago
0
Support additional container software

#464 bcdarwin opened 2 years ago
0
Improve LSQ6 options regarding rotation vs translation

#463 bcdarwin opened 2 years ago
1
Error in 'test_MBM_and_MAGeT.py '

#462 fire9291 opened 2 years ago
5
Filesystem-related scaling issues for large pipelines

#461 gdevenyi opened 2 years ago
4
Improve internal configuration handling

#460 bcdarwin opened 2 years ago
0
consider splitting backend into separate package to improve reproducibility

#459 bcdarwin opened 3 years ago
0
Images used to generate intensity averages during nonlinear registration have extra lsq12 resampling step

#458 bcdarwin opened 3 years ago
0
State of disk cleanup wiki page

#457 gdevenyi opened 3 years ago
0
Pydpiper functionality questions

#456 araikes opened 3 years ago
3
Shrink mask after MBM

#455 araikes opened 3 years ago
21
display masks used for registration on montage images

#454 bcdarwin opened 3 years ago
0
--smart-restart should modify stage descendants, not just single node

#453 bcdarwin opened 4 years ago
0
--smart-restart should compare oldest input to *youngest* (not oldest) output

#452 bcdarwin opened 4 years ago
0
Better technique for MAGeT LSQ12 registrations

#451 bcdarwin opened 4 years ago
0
fix nonlinear minctracc file write errors

#450 dorkylever closed 4 years ago
3
Manually overriding stages within a pipeline?

#449 dorkylever closed 4 years ago
2
MBM.py --registration-method minctracc has a file write error

#448 dorkylever closed 4 years ago
3
asymmetry.py doesn't generate CSVs like underlying two-level pipeline

#447 bcdarwin opened 4 years ago
0
montage/mincmath/minc{,big}average commands can become too long for kernel

#446 bcdarwin opened 4 years ago
0
Feature Request: Optionally do a montage of all input mincs

#445 nzxwang opened 4 years ago
1
Pydpiper should use pathlib's Path class to store all filepaths

#444 nzxwang opened 4 years ago
1
twolevel_model_building.py's analysis.csv can end up empty if input.csv has extra/trailing forwardslashes

#443 nzxwang closed 4 years ago
0
If `pipeline_executor.py ...` command is too long, it will fail silently

#442 nzxwang opened 4 years ago
0
Local pipeline randomly stalls

#441 jamesu opened 4 years ago
12
twolevel_model_building.py's analysis.csv is broken

#440 nzxwang closed 4 years ago
2
Generation of model is successful but jacobians are incomplete

#439 gdevenyi closed 4 years ago
4
montage fails on Graham

#438 nzxwang opened 4 years ago
4
MBM and Maget test - executors don't register with server

#437 ghost closed 4 years ago
8
Is asymmetry.py functional?

#436 dorkylever closed 4 years ago
2
error when running pydpiper test: qsub: cannot connect to server

#435 ghost closed 4 years ago
0
Is it possible to run test_MBM_and_MAGeT without using qbatch?

#434 ghost closed 4 years ago
2
pydpiper setup.py specifies >3.5 however since f-strings are used we need 3.6

#433 gdevenyi closed 4 years ago
2
Error running test: The 'pydpiper==2.0.13' distribution was not found and is required by the application

#432 ghost closed 4 years ago
6
Request: Provide documentation for micro-CT configuration settings

#431 dorkylever closed 4 years ago
7
Request: improve documentation of smart restart

#430 gdevenyi closed 4 years ago
1
pydpiper only takes one lsq12 protocol

#429 nzxwang closed 4 years ago
1
recognize False as a return code for a stage

#428 nzxwang closed 4 years ago
3
Add CITATION file

#427 gdevenyi opened 4 years ago
0
v2.0.13 crashes attempting to merge analysis.csv in twolevel_model_building.py

#426 gdevenyi closed 4 years ago
7
v2.013 MBM can't find Startup.pm specifically when --bootstrap is specified

#425 dorkylever closed 4 years ago
28
Testing code not functional

#424 gdevenyi opened 5 years ago
3
PydPiper output MINC files can be compressed further to save disk space

#423 yohanyee opened 5 years ago
6
Feature Request: can analysis.csv also output lsq12, nlin-1, nlin-2, and other stages?

#422 nzxwang opened 5 years ago
0
MBM.py shuts down for no discernible reason

#421 gdevenyi closed 5 years ago
3
Feature Request: --smart-restart should also check if an input is available (instead of failing)

#420 nzxwang opened 5 years ago
1
Should --lsq6-center-estimation initial COM alignment use a mask?

#419 gdevenyi opened 5 years ago
0
Should stats-kernel default depend on resolution of model (or --resolution)?

#418 gdevenyi opened 5 years ago
2