[stdout]
Martian runtime detected. Try Num. = 1
['crconverter', u'359-A1', u'SPATIAL_RNA_COUNTER_CS', '--matrix', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/_BASIC_SPATIAL_RNA_COUNTER/FILTER_BARCODES/fork0/join-udc993db016/files/filtered_matrices_h5.h5', '--analysis', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/SPATIAL_RNA_ANALYZER/SUMMARIZE_ANALYSIS/fork0/join-udc993db0ea/files/analysis/analysis.h5', '--output', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/chnk0-udc993db0f3/files/output_for_cloupe.cloupe', '--description', u'', '--metrics', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_RNA_COUNTER/SPATIAL_REPORTER/fork0/chnk0-udc993db0ed/files/metrics_summary_json.json', '--spatial-image-path', u'/gpfs/home/jw7078/ST-359/ST-359-A1.jpg', '--spatial-tissue-path', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_IMAGING_CS/DETECT_TISSUE/fork0/chnk0-udc993dac7e/files/tissue_positions_list.csv', '--spatial-dzi-path', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/CLOUPE_TILE_IMAGES/fork0/join-udc993dac68/files/dzi_info.json', '--spatial-tiles-paths', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/CLOUPE_TILE_IMAGES/fork0/join-udc993dac68/files/dzi_tiles_paths/tiles_0_0_files', '--spatial-fiducials-path', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_IMAGING_CS/ALIGN_FIDUCIALS/fork0/chnk0-udc993dac79/files/fiducial_positions_list.txt', '--spatial-scalefactors-path', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/SPATIAL_IMAGING_CS/ALIGN_FIDUCIALS/fork0/chnk0-udc993dac79/files/scalefactors_json.json', '--spatial-image-type', 'brightfield', '--gemgroups', u'/gpfs/data/yanailab/projects/jw7078/processed_data/359-A1/SPATIAL_RNA_COUNTER_CS/CLOUPE_PREPROCESS/fork0/chnk0-udc993db0f3/files/gem_group_index_json.json']
