diff --git a/internal_use/docs/_build/gettext/AdvancedSegmentation.pot b/internal_use/docs/_build/gettext/AdvancedSegmentation.pot index 29258c8dc..6df5e3fdd 100644 --- a/internal_use/docs/_build/gettext/AdvancedSegmentation.pot +++ b/internal_use/docs/_build/gettext/AdvancedSegmentation.pot @@ -8,7 +8,7 @@ msgid "" msgstr "" "Project-Id-Version: cellprofiler-tutorials \n" "Report-Msgid-Bugs-To: \n" -"POT-Creation-Date: 2024-03-15 11:33-0400\n" +"POT-Creation-Date: 2026-02-25 20:59+0000\n" "PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n" "Last-Translator: FULL NAME \n" "Language-Team: LANGUAGE \n" @@ -81,7 +81,7 @@ msgid "**Input images and configure metadata**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:77 -msgid "1. **Load images and metadata**" +msgid "**1. Load images and metadata**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:79 @@ -101,7 +101,7 @@ msgid "Drag and drop the ‘BBBC022_20585_AE’ folder into the ‘File list’ msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:89 -msgid "2. **Import metadata from the CSV**" +msgid "**2. Import metadata from the CSV**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:91 @@ -153,7 +153,7 @@ msgid "Image_Metadata_CPD_WELL_POSITION (from the spreadsheet) is matched to Wel msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:116 -msgid "3. **Examine the channel mappings in NamesAndTypes (optional)**" +msgid "**3. Examine the channel mappings in NamesAndTypes (optional)**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:118 @@ -205,7 +205,7 @@ msgid "**Illumination correction**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:157 -msgid "4. **Examine the output of the CorrectIlluminationApply module (optional)**" +msgid "**4. Examine the output of the CorrectIlluminationApply module (optional)**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:159 @@ -233,11 +233,11 @@ msgid "*Figure 4: Application of the illumination correction functions.*" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:186 -msgid "**Segmenet Nuclei, Cells and Cytoplasm**" +msgid "**Segment Nuclei, Cells and Cytoplasm**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:188 -msgid "5. **IdentifyPrimaryObjects- Nuclei**" +msgid "**5. IdentifyPrimaryObjects- Nuclei**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:190 @@ -261,7 +261,7 @@ msgid "Adjust the segmentation parameters until you feel you’re ready to move msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:205 -msgid "6. **IdentifySecondaryObjects- Cells**" +msgid "**6. IdentifySecondaryObjects- Cells**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:207 @@ -281,7 +281,7 @@ msgid "Examine the segmentation and adjust the segmentation parameters until you msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:218 -msgid "7. **Test the robustness of your segmentation parameters across multiple compounds**" +msgid "**7. Test the robustness of your segmentation parameters across multiple compounds**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:220 @@ -317,7 +317,7 @@ msgid "Some hints on what to play with: \\- In both IdentifyPrimaryObjects and msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:262 -msgid "8. **IdentifyTertiaryObjects- Cytoplasm**" +msgid "**8. IdentifyTertiaryObjects- Cytoplasm**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:264 @@ -333,7 +333,7 @@ msgid "**Segment Nucleoli inside the Nuclei**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:272 -msgid "9. **Examine the steps used to segment the Nucleoli**" +msgid "**9. Examine the steps used to segment the Nucleoli**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:274 @@ -365,7 +365,7 @@ msgid "**Segment the Mitochondria inside the Cytoplasm**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:311 -msgid "10. **Mask the Mito image by the Cytoplasm object**" +msgid "**10. Mask the Mito image by the Cytoplasm object**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:313 @@ -393,7 +393,7 @@ msgid "*Figure 7: The MaskedMito image contains only the regions of interest.*" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:338 -msgid "12. **IdentifyPrimaryObjects- Mitochondria**" +msgid "**11. IdentifyPrimaryObjects- Mitochondria**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:340 @@ -413,7 +413,7 @@ msgid "**Perform Measurements**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:353 -msgid "13. **Add measurement modules to your pipeline**" +msgid "**12. Add measurement modules to your pipeline**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:355 @@ -477,7 +477,7 @@ msgid "**Relate Nucleoli and Mitochondria to their respective nuclei/cells**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:429 -msgid "14. Examine the settings of RelateObjects" +msgid "**13. Examine the settings of RelateObjects**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:431 @@ -493,7 +493,7 @@ msgid "**Perform the analysis on ALL the images**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:442 -msgid "15. **Run the pipeline (optional)**" +msgid "**14. Run the pipeline (optional)**" msgstr "" #: ../../source/AdvancedSegmentation/BBBC022_AnalysisExercise.md:444 diff --git a/internal_use/docs/_build/gettext/BeginnerSegmentation.pot b/internal_use/docs/_build/gettext/BeginnerSegmentation.pot index b29827527..0031b582f 100644 --- a/internal_use/docs/_build/gettext/BeginnerSegmentation.pot +++ b/internal_use/docs/_build/gettext/BeginnerSegmentation.pot @@ -8,7 +8,7 @@ msgid "" msgstr "" "Project-Id-Version: cellprofiler-tutorials \n" "Report-Msgid-Bugs-To: \n" -"POT-Creation-Date: 2025-10-27 00:08+0000\n" +"POT-Creation-Date: 2026-02-25 20:59+0000\n" "PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n" "Last-Translator: FULL NAME \n" "Language-Team: LANGUAGE \n" @@ -693,7 +693,7 @@ msgid "Start CellProfiler by double-clicking the desktop icon: \n" "Language-Team: LANGUAGE \n" @@ -65,7 +65,7 @@ msgid "It is additionally expected that you are generally familiar with the tool msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:49 -msgid "1. **Start the provided QC pipeline on the BBBC022 dataset**" +msgid "**1. Start the provided QC pipeline on the BBBC022 dataset**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:51 @@ -101,7 +101,7 @@ msgid "The pipeline should take about 10-15 minutes to run. At the end, three fi msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:76 -msgid "2. **Examine the QC pipeline (~15 minutes)**" +msgid "**2. Examine the QC pipeline (~15 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:78 @@ -190,7 +190,7 @@ msgid "**CellProfiler specific adjustments**: besides determining the location o msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:153 -msgid "3. **Open the CellProfiler Analyst workspace and determine reasonable parameter cutoffs (~20 minutes)**" +msgid "**3. Open the CellProfiler Analyst workspace and determine reasonable parameter cutoffs (~20 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:155 @@ -242,7 +242,7 @@ msgid "Look at some of the images inside the gate (you may need to click ‘Show msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:214 -msgid "4. **Optional — use the PlateViewer tool to check for other features to gate on (~10 minutes)**" +msgid "**4. Optional — use the PlateViewer tool to check for other features to gate on (~10 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:216 @@ -270,7 +270,7 @@ msgid "Once you have a measurement you'd like to gate based on, open that Histog msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:242 -msgid "5. **Create filters based on the cutoffs you’ve determined (~10 minutes)**" +msgid "**5. Create filters based on the cutoffs you’ve determined (~10 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:244 @@ -359,7 +359,7 @@ msgid "*Figure 3: Creating filters inside CPA*" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:320 -msgid "6. **Create classifier rules to distinguish good from bad images (~30 minutes)**" +msgid "**6. Create classifier rules to distinguish good from bad images (~30 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:322 @@ -403,7 +403,7 @@ msgid "Save your training set for future reference if desired, then close CellPr msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:362 -msgid "7. **Add quality control steps to an analysis pipeline (~15 minutes)**" +msgid "**7. Add quality control steps to an analysis pipeline (~15 minutes)**" msgstr "" #: ../../source/QualityControl/BBBC022_QualityControlExercise.md:364 diff --git a/internal_use/docs/_build/gettext/Translocation.pot b/internal_use/docs/_build/gettext/Translocation.pot index 9b2f0fef8..bcd43d4d8 100644 --- a/internal_use/docs/_build/gettext/Translocation.pot +++ b/internal_use/docs/_build/gettext/Translocation.pot @@ -8,7 +8,7 @@ msgid "" msgstr "" "Project-Id-Version: cellprofiler-tutorials \n" "Report-Msgid-Bugs-To: \n" -"POT-Creation-Date: 2024-03-15 11:33-0400\n" +"POT-Creation-Date: 2026-02-25 20:59+0000\n" "PO-Revision-Date: YEAR-MO-DA HO:MI+ZONE\n" "Last-Translator: FULL NAME \n" "Language-Team: LANGUAGE \n" @@ -69,7 +69,7 @@ msgid "Exercise I: Using the CellProfiler software to identify features and obta msgstr "" #: ../../source/Translocation/Translocation.md:79 -msgid "1. **Starting CellProfiler and configuring the input data for analysis**" +msgid "**1. Starting CellProfiler and configuring the input data for analysis**" msgstr "" #: ../../source/Translocation/Translocation.md:81 @@ -153,7 +153,7 @@ msgid "Click the “Update” button below the divider to display a table that s msgstr "" #: ../../source/Translocation/Translocation.md:157 -msgid "2. **Identifying the nuclei as the “primary objects” that you will analyze**" +msgid "**2. Identifying the nuclei as the “primary objects” that you will analyze**" msgstr "" #: ../../source/Translocation/Translocation.md:159 @@ -225,7 +225,7 @@ msgid "*Figure 3: A zoomed-in view of the display window for IdentifyPrimaryObje msgstr "" #: ../../source/Translocation/Translocation.md:232 -msgid "3. **Improve identification of primary objects**" +msgid "**3. Improve identification of primary objects**" msgstr "" #: ../../source/Translocation/Translocation.md:234 @@ -273,7 +273,7 @@ msgid "This thresholding approach takes the medium-intensity pixels and assigns msgstr "" #: ../../source/Translocation/Translocation.md:291 -msgid "4. **Identifying the cell body as a “secondary object” that you will analyze**" +msgid "**4. Identifying the cell body as a “secondary object” that you will analyze**" msgstr "" #: ../../source/Translocation/Translocation.md:293 @@ -341,7 +341,7 @@ msgid "Click the button t msgstr "" #: ../../source/Translocation/Translocation.md:357 -msgid "5. **Identifying the cytoplasm as a “tertiary object”**" +msgid "**5. Identifying the cytoplasm as a “tertiary object”**" msgstr "" #: ../../source/Translocation/Translocation.md:359 @@ -377,7 +377,7 @@ msgid "*Figure 5: Example module display window for IdentifyTertiaryObjects*" msgstr "" #: ../../source/Translocation/Translocation.md:386 -msgid "6. **Measuring the cells’ characteristics (i.e. the “object features”)**" +msgid "**6. Measuring the cells’ characteristics (i.e. the “object features”)**" msgstr "" #: ../../source/Translocation/Translocation.md:388 @@ -479,7 +479,7 @@ msgid "Select “Object” for the “Select the numerator type,” and select msgstr "" #: ../../source/Translocation/Translocation.md:473 -msgid "7. **Creating an image with your cell and nuclear outlines on it (optional)**" +msgid "**7. Creating an image with your cell and nuclear outlines on it (optional)**" msgstr "" #: ../../source/Translocation/Translocation.md:475 @@ -607,7 +607,7 @@ msgid "All the other settings may be left at their default values." msgstr "" #: ../../source/Translocation/Translocation.md:539 -msgid "8. **Exporting the measurements to a database**" +msgid "**8. Exporting the measurements to a database**" msgstr "" #: ../../source/Translocation/Translocation.md:541 @@ -655,7 +655,7 @@ msgid "Check the box “Write image thumbnails directly to database?” From the msgstr "" #: ../../source/Translocation/Translocation.md:578 -msgid "9. **Using the optimized pipeline to automatically analyze all images generated by the screening experiment**" +msgid "**9. Using the optimized pipeline to automatically analyze all images generated by the screening experiment**" msgstr "" #: ../../source/Translocation/Translocation.md:580 @@ -719,7 +719,7 @@ msgid "If you move the database file, you'll need to edit the properties file to msgstr "" #: ../../source/Translocation/Translocation.md:636 -msgid "1. **Visualizing the measurements in a 96-well plate layout view**" +msgid "**1. Visualizing the measurements in a 96-well plate layout view**" msgstr "" #: ../../source/Translocation/Translocation.md:638 @@ -775,7 +775,7 @@ msgid "Do not close the Plate Viewer tool, as you will be referring to it later msgstr "" #: ../../source/Translocation/Translocation.md:704 -msgid "2. **Using the Classifier function of CPA to distinguish the cells’ FOXO1A-GFP subcellular localization phenotypes**" +msgid "**2. Using the Classifier function of CPA to distinguish the cells’ FOXO1A-GFP subcellular localization phenotypes**" msgstr "" #: ../../source/Translocation/Translocation.md:706 @@ -827,7 +827,7 @@ msgid "We refer to this set of positive and negative cells you have assembled as msgstr "" #: ../../source/Translocation/Translocation.md:772 -msgid "3. **Reviewing the rules that CPA established (based on your training set) to classify positive and negative cells**" +msgid "**3. Reviewing the rules that CPA established (based on your training set) to classify positive and negative cells**" msgstr "" #: ../../source/Translocation/Translocation.md:774 @@ -855,7 +855,7 @@ msgid "Questions to consider: (1) What is the top-most measurement that shows up msgstr "" #: ../../source/Translocation/Translocation.md:797 -msgid "4. **Reviewing the accuracy of the classification with the confusion matrix**" +msgid "**4. Reviewing the accuracy of the classification with the confusion matrix**" msgstr "" #: ../../source/Translocation/Translocation.md:799 @@ -875,7 +875,7 @@ msgid "*Figure 8: Examples of confusion matrices from a poorly-trained (left) an msgstr "" #: ../../source/Translocation/Translocation.md:837 -msgid "5. **Refining the training set by sorting more “unclassified” cells into the “positive” and “negative” bins**" +msgid "**5. Refining the training set by sorting more “unclassified” cells into the “positive” and “negative” bins**" msgstr "" #: ../../source/Translocation/Translocation.md:839 @@ -977,7 +977,7 @@ msgid "Whatever approach you choose to obtain more positive and negative cells, msgstr "" #: ../../source/Translocation/Translocation.md:940 -msgid "6. **Classifying all cells in the experiment**" +msgid "**6. Classifying all cells in the experiment**" msgstr "" #: ../../source/Translocation/Translocation.md:942 @@ -1009,7 +1009,7 @@ msgid "You can also save your training set and/or classifer model for future ref msgstr "" #: ../../source/Translocation/Translocation.md:975 -msgid "7. **Saving the scores to the measurement database for visualization**" +msgid "**7. Saving the scores to the measurement database for visualization**" msgstr "" #: ../../source/Translocation/Translocation.md:977 @@ -1049,7 +1049,7 @@ msgid "Refer to the previous Plate Viewer display of *“Image_Metadata_Dose*” msgstr "" #: ../../source/Translocation/Translocation.md:1011 -msgid "8. **Plotting the scoring results, to estimate the lowest dose necessary to induce FOX1O-GFP translocation**" +msgid "**8. Plotting the scoring results, to estimate the lowest dose necessary to induce FOX1O-GFP translocation**" msgstr "" #: ../../source/Translocation/Translocation.md:1013 @@ -1077,7 +1077,7 @@ msgid "In the space below, record your questions to the following questions: (1) msgstr "" #: ../../source/Translocation/Translocation.md:1036 -msgid "9. **Exporting your classifier for use in a CellProfiler pipeline**" +msgid "**9. Exporting your classifier for use in a CellProfiler pipeline**" msgstr "" #: ../../source/Translocation/Translocation.md:1038