EcoTyper single-cell wilcoxon error log
The logs of EcoTyper failing when there is only a single cell available.
NoahHK
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3 years ago
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Running EcoTyper... Step 1 (extract cell type specific genes)... [1] "Cholangiocytes" [1] "Endothelial_cell" [1] "Hepatic_stellate_cells" [1] "Hepatoblasts" [1] "Hepatocytes" [1] "Immune_system_cells" [1] "Kupffer_cells" [1] "Mast_cells" [1] "Monocytes" [1] "Unknown" Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type from the EcoTyper analysis! Warning message: row_wilcoxon_twosample: 17055 of the rows had less than 1 remaining finite "x" observation. First occurrence at row 1 Step 1 (extract cell type specific genes) finished successfully! Step 2 (cell state discovery on correrlation matrices): Calculating correlation matrices... Error: Only 1 single cells are available for cell type: Cholangiocytes. At least 50 are required. Skipping this cell type! Execution halted Warning message: There are more than 2500 single cells available for cell type 'Endothelial_cell'. Subsampling to 2500 cells. Warning message: There are more than 2500 single cells available for cell type 'Unknown'. Subsampling to 2500 cells. Warning message: There are more than 2500 single cells available for cell type 'Kupffer_cells'. Subsampling to 2500 cells. Warning message: There are more than 2500 single cells available for cell type 'Hepatocytes'. Subsampling to 2500 cells. Filtering 'Monocytes' profiles for cell type specific genes... Filtering 'Mast_cells' profiles for cell type specific genes... Filtering 'Immune_system_cells' profiles for cell type specific genes... Filtering 'Hepatoblasts' profiles for cell type specific genes... Filtering 'Hepatocytes' profiles for cell type specific genes... Filtering 'Hepatic_stellate_cells' profiles for cell type specific genes... Filtering 'Unknown' profiles for cell type specific genes... Filtering 'Kupffer_cells' profiles for cell type specific genes... Filtering 'Endothelial_cell' profiles for cell type specific genes... Error in RunJobQueue() : EcoTyper failed. Please check the error message above! Execution halted
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