Cellprofiler properties file
09:43:29,413 CellProfiler Analyst: INFO:root: SQLite file: /Users/paulinejeannot/Documents/Labo/Image Analysis/Astrocyte_2nd try/Astrocyte_2ndtry_database.db
![cellprofiler properties file cellprofiler properties file](https://ucsb-vrl.github.io/bisqueUCSB/images/cpmanual_examples.png)
09:43:29,413 CellProfiler Analyst: INFO:root: Connecting to the database… 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING (well_format): Field was not defined, using default format of “A01”. 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING (plate_type): Field is required for plate viewer 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING (well_id): Field is required for plate map viewer. 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING (plate_id): Field is required for plate map viewer. 09:43:29,379 CellProfiler Analyst: INFO:root:PROPERTIES: Per-Object classes will be written to table “Phenotype” 09:43:29,379 CellProfiler Analyst: INFO:root:PROPERTIES: Using default tile_buffer_size=1 09:43:29,379 CellProfiler Analyst: INFO:root:PROPERTIES: Using default image_buffer_size=1 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING (channels_per_image): No value(s) specified. 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING: Unrecognized field “timepoint_id” in properties file 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING: Unrecognized field “group_id” in properties file 09:43:29,379 CellProfiler Analyst: WARNING:root:PROPERTIES WARNING: Unrecognized field “series_id” in properties file I don’t know it helps but here’s what I get when I open the console after the error message: Then I installed CPA again and I still have the same error message after selecting the properties files… Can it come from something else ? Java HotSpot™ 64-Bit Server VM (build 13.0.1+9, mixed mode, sharing) Java™ SE Runtime Environment (build 13.0.1+9) Note: All fields described in the sections below (after the properties file example) are required unless explicitly described as “optional.” In your own properties file, you would replace values surrounded with with the relevant information.I uninstalled java and JDK and setup the last versions for both.
![cellprofiler properties file cellprofiler properties file](https://image2.slideserve.com/4815488/the-cellprofiler-interface1-l.jpg)
Contact us on the CellProfiler forums if you need help with this. Note: CPA 2.0 is not compatible with properties files from CellProfiler Analyst version 1.0, but the two formats may be easily converted by hand. We suggest using Notepad on Windows, TextEdit on Mac OS, and Emacs on Linux. Note: When editing the properties file, it is important to use an editor that is capable of saving plain text. Settings that require a file path may be specified either as absolute or relative to the directory that the properties file is found in. Lines that begin with a # are ignored by CPA and may be used for comments. Otherwise, you can create one manually, referring to the Properties_README or the example provided below as a template.Įach setting in the properties file is stored on a separate line in the form field = value(s), and the order of the settings is not important.
![cellprofiler properties file cellprofiler properties file](https://image2.slideserve.com/4815488/cellprofiler-overview-l.jpg)
![cellprofiler properties file cellprofiler properties file](https://i.ytimg.com/vi/OEHYXdOINg0/maxresdefault.jpg)
If you use CellProfiler to produce the data to be analyzed in CPA, you can automatically generate a nearly complete properties file with, using the ExportToDatabase module. It is selected and loaded upon startup of CPA. This file can be stored anywhere on your computer. The properties file is a plain text file that contains the configuration information necessary for CPA to access your data and images.