| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/3.4.3+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.10.0.0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.6.0.1 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.6.0.0 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.4.0.1 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.4.0.0 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.4 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.3 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.2 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.1 |
| toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.0 |
| cardinal_quality_report |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bioconductor-cardinal | 2.10.0 | package |
| r-gridextra | 2.3 | package |
| r-ggplot2 | 3.3.5 | package |
| r-rcolorbrewer | 1.1_2 | package |
| r-kernsmooth | 2.23_20 | package |
| r-scales | 1.1.1 | package |
| r-pheatmap | 1.0.12 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
infile: processed_cond|accuracy: 400 processed_cond|units: ppm processed_cond|processed_file: processed tabular_annotation|load_annotation: no_annotation filename: Testfile_imzml calibrant_file: inputcalibrantfile1.tabular mz_column: 1 name_column: 1 plusminus_ppm: 100 do_pca: True calibrantratio_0|mass1: 328.9 calibrantratio_0|mass2: 398.8 calibrantratio_0|distance: 500 calibrantratio_0|filenameratioplot: Ratio of mz 328.9 and mz 398.8 |
name: value |
inputcalibrantfile1.tabular value |
| Test-2 |
infile: tabular_annotation|load_annotation: no_annotation filename: Testfile_analyze75 do_pca: True |
name: value |
value |
| Test-3 |
infile: 3_files_combined.RData tabular_annotation|annotation_file: annotations_rdata.tabular tabular_annotation|column_x: 1 tabular_annotation|column_y: 2 tabular_annotation|column_names: 3 tabular_annotation|tabular_header: True tabular_annotation|load_annotation: yes_annotation filename: Testfile_rdata calibrant_file: inputcalibrantfile1.tabular mz_column: 1 name_column: 1 plusminus_ppm: 100 do_pca: True |
name: value |
3_files_combined.RData annotations_rdata.tabular inputcalibrantfile1.tabular value |
| Test-4 |
infile: empty_spectra.rdata tabular_annotation|load_annotation: no_annotation filename: Testfile_rdata calibrant_file: inputcalibrantfile2.txt mz_column: 1 name_column: 2 do_pca: False |
name: value |
empty_spectra.rdata inputcalibrantfile2.txt value |
| Test-5 |
infile: processed_cond|accuracy: 200 processed_cond|units: ppm processed_cond|processed_file: processed tabular_annotation|load_annotation: no_annotation calibrant_file: inputcalibrantfile1.tabular mz_column: 1 name_column: 1 report_depth: False |
name: value |
inputcalibrantfile1.tabular value |