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pelkmanslab / iBRAIN_BRUTUS

A version of canonical iBRAIN (2015) deployed on BRUTUS cluster
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stitchWellSegmentationPerWell does not support LIB and thus bugfixes #23

Closed tstoeger closed 9 years ago

tstoeger commented 9 years ago

custom functions (in this case: fix for a general function of lab) supplied in LIB do not appear to become executed by stitchWellSegmentation (resulting in same error as not fixed general function of lab). I would potentially require the output of stitchWellSegmentation as it is required for projecting data to single cells with the lab's default functions.

On the projects/microscope-slides required for the revision of our manuscript, LIB does contain a fix for issue #22 , for which merge request has has been placed in https://github.com/pelkmanslab/iBRAINShared/pull/13 and unit test supplied to https://github.com/pelkmanslab/iBRAIN_UZH/tree/tests . In addition the fix has in the meantime worked on 10 different experiments on multiple occasions outside of stitchWellSegmentation, including during earlier steps of the same slide .

tstoeger commented 9 years ago

Thanks. image_snake within LIB now becomes available to well segmentation.

(I will take care of the unrelated different/new? error, caused by later part of well segmentation, which is surfacing now, that first part of well segmentation can be executed)