![]() ![]() 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 This pipeline shows how to do both of these tasks, and demonstrates how various modules may be used to accomplish the same result. 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 Cell/particle counting, and scoring the percentage of stained objects: CellProfiler is commonly used to count cells or other objects as well as percent-positives, by measuring the per-cell staining intensity. If using Windows do NOT use Python XY, as it only installs as 32 bit. Based on project statistics from the GitHub repository for the PyPI package CellProfiler, we found that it has been starred 767 times. As such, we scored CellProfiler popularity level to be Small. 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. Downloading CellProfiler's libraries and dependencies Download and install packages for Python 3.8 64-bit on your machine (older versions of CellProfiler required Python 2.7) We recommend starting with a fresh install of Python. The PyPI package CellProfiler receives a total of 536 downloads a week. A user-friendly option for machine learning is the. PDF Protocol example input data CellProfiler pipeline example output data Step 3: Use any programming language for supervised or unsupervised machine learning, such as python or R. ![]() Im trying to run the bioimaging analysis package 'cell profiler' on Ubuntu 16.04, following the source installation instructions provided by the developers: The pipeline also generates a CellProfiler Analyst properties file for the machine learning in step 3. ![]()
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