Pkg_resources.ContextualVersionConflict: (matplotlib 1.5.1 (/usr/lib/python2.7/dist-packages), Requirement.parse('matplotlib>=2.0. Raise VersionConflict(dist, req).with_context(dependent_req) 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 a The pipeline panel consists of input modules for data entry (image file or folder name, image type, and grouping. with CellProfiler 2.2.0 (CellProfiler pipeline provided as File S1).
#Cellprofiler 2.2.0 install#
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 CellProfiler Analyst: interactive data exploration, analysis and classification of. Hello I am trying the 64-bit Windows version of the 2.2.0 release on Windows 7 but I could not install it because it claims that I don’t have java installed.However, I just installed java8 and Oracle is happily telling me that i successfully did so. 0 An open-source application for measuring phenotypes. in case that helps: C:\Program Files\CellProfiler>java -version java version '1.8.066' Java SE Runtime Environment (build 1.8.066-b18) Java HotSpot 64-Bit Server VM (build 25. 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. imperial-college-research-computing / packages / cellprofiler. If you have one of these, you should use a 2.X build (like the stable 2.2. Im trying to run the bioimaging analysis package 'cell profiler' on Ubuntu 16.04, following the source installation instructions provided by the developers: CellProfiler 3.0 is not able to load old MatLab CellProfiler 1.0 pipelines. Server is running OMERO version 5.3.x, and that has been tested to work together with CellProfiler versions 2.2.0.
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