![]() Pkg_resources.ContextualVersionConflict: (matplotlib 1.5.1 (/usr/lib/python2.7/dist-packages), Requirement.parse('matplotlib>=2.0. Server is running OMERO version 5.3.x, and that has been tested to work together with CellProfiler versions 2.2.0. Independently, Sadanandan and colleagues created a CellProfiler 2.2.0 module CellProfiler-Caffe bridgethat enables running a pretrained model for cell segmentation within a CellProfiler pipeline 22. Raise VersionConflict(dist, req).with_context(dependent_req) The ImageXpress channel name refers to the text in the raw image file name identifying the acquired wavelength. #CELLPROFILER 2.2.0 SOFTWARE#with CellProfiler 2.2.0 (CellProfiler pipeline provided as File S1). The CellProfiler channel name refers to the name given by the software to each channel this nomenclature also applies to the naming of the extracted morphological features. Return cls._build_from_requirements(_requires_)įile "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 593, in _build_from_requirementsįile "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 786, in resolve CellProfiler Analyst: interactive data exploration, analysis and classification of. ![]() Cell profiler seems to be running using python2.7, not python3.6 which is also set up on this machine, so this could be the source of the problem?Įrror message in full: Traceback (most recent call last):įile "/usr/local/bin/cellprofiler", line 6, in įrom pkg_resources import load_entry_pointįile "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 3112, in "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 3096, in _call_asideįile "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 3125, in _initialize_master_working_setįile "/usr/local/lib/python2.7/dist-packages/pkg_resources/_init_.py", line 580, in _build_master However when I attempt to run cellprofiler from terminal, i encounter the following error code, which seems to be telling me there is a version conflict of matplotlib. kandi ratings - Low support, No Bugs, No Vulnerabilities. ![]() of CellProfiler pipelines in CellProfiler 2.2.0 (Kamentsky et al., 2011). 2.2.0) was created to (1) identify RPE cells on the isolated RPE flat mount via ZO-1 staining, (2) identify all autofluorescent particles present on the RPE flat mount, (3) create a mask from. #CELLPROFILER 2.2.0 CODE#Im trying to run the bioimaging analysis package 'cell profiler' on Ubuntu 16.04, following the source installation instructions provided by the developers: Implement CellProfiler with how-to, Q&A, fixes, code snippets. ImageJ and CellProfiler are two of the most widely used open source image. ![]()
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