search

mhorlbeck / ScreenProcessing

62 stars 30 forks source link

Error during demo #2

Closed mmarchin closed 1 year ago

mmarchin commented 7 years ago

Hi, I am just trying to run the scripts with the Demo data and am getting an error on the process_experiments.py step. Step1 seems to have worked correctly, as far as I can tell.

Here's the output I get: Accessing library information Loading counts data Merging experiment counts split across lanes/indexes -generating sgRNA read count histograms /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/007_fig_counts_hist.png /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/008_fig_counts_hist.png /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/009_fig_counts_hist.png /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/010_fig_counts_hist.png /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/011_fig_counts_hist.png /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/012_fig_counts_hist.png Computing sgRNA phenotype scores -generating phenotype histograms and scatter plots /home/mcm/bin/ScreenProcessing/Demo/Step2/output/ctx_demo_plots/013_fig_counts_scatter.png Traceback (most recent call last): File "process_experiments.py", line 555, in processExperimentsFromConfig(args.Config_File, args.Library_File_Directory, args.plot_extension.lower()) File "process_experiments.py", line 143, in processExperimentsFromConfig screen_analysis.phenotypeHistogram(tempDataDict, phenotype, replicate) File "/home/mcm/bin/ScreenProcessing/screen_analysis.py", line 236, in phenotypeHistogram histtype='step', color=[almost_black, '#BFBFBF'], label=['all sgRNAs', 'non-targeting sgRNAs'], lw=1) File "/n/apps/CentOS7/install/pyenv-1.0.0/pyenv/versions/2.7.5/lib/python2.7/site-packages/matplotlib/init.py", line 1819, in inner return func(ax, *args, **kwargs) File "/n/apps/CentOS7/install/pyenv-1.0.0/pyenv/versions/2.7.5/lib/python2.7/site-packages/matplotlib/axes/_axes.py", line 5958, in hist raise ValueError("color kwarg must have one color per dataset") ValueError: color kwarg must have one color per dataset

I also attached the config file with my edits. If you can tell me if I'm doing something wrong or have any idea what is going wrong, I would appreciate your help.

Thanks! We hope to use your scripts with some real data soon.

I am using Python 2.7.5, with numpy 1.11.1, biopython 1.66, scipy 0.17.0, pandas 0.18.1, matplotlib 1.5.1, and ipython 4.1.1.

experiment_config_file_DEMO.txt

as00419 commented 5 years ago

Hi, I'd like to know whether you have solved this problem? I've met the same one: File "/usr/local/lib/python2.7/dist-packages/matplotlib/init.py", line 1867, in inner return func(ax, *args, **kwargs) File "/usr/local/lib/python2.7/dist-packages/matplotlib/axes/_axes.py", line 6613, in hist raise ValueError("color kwarg must have one color per dataset") ValueError: color kwarg must have one color per dataset

mmarchin commented 5 years ago

Hi, I'd like to know whether you have solved this problem? I've met the same one: File "/usr/local/lib/python2.7/dist-packages/matplotlib/init.py", line 1867, in inner return func(ax, *args, **kwargs) File "/usr/local/lib/python2.7/dist-packages/matplotlib/axes/_axes.py", line 6613, in hist raise ValueError("color kwarg must have one color per dataset") ValueError: color kwarg must have one color per dataset

Never figured it out. I just was only able to use the first script.