Closed oliveralka closed 3 years ago
fixes #76
Some of the URLs were set incorrectly. All files are already in src/data/.
src/data/
Please let me know if you think anything else is missing.
IMHO should be all:
find . -name "*.rst" -exec grep -H "urlretrieve (" {} \; ./docs/source/smoothing.rst: urlretrieve (gh +"/src/data/peakpicker_tutorial_1_baseline_filtered.mzML", "tutorial.mzML") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/IdXMLFile_whole.idXML", "test.idXML") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/MzIdentML_3runs.mzid", "test.mzid") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/PepXMLFile_test.pepxml", "test.pepxml") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/ProtXMLFile_input_1.protXML", "test.protXML") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/FeatureFinderCentroided_1_output.featureXML", "test.featureXML") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/ConsensusXMLFile_1.consensusXML", "test.consensusXML") ./docs/source/other_file_handling.rst: urlretrieve (gh + "/src/data/ConvertTSVToTraML_output.TraML", "test.TraML") ./docs/source/feature_detection.rst: urlretrieve (gh + "/src/data/FeatureFinderCentroided_1_input.mzML", "feature_test.mzML") ./docs/source/metabolomics_targeted_feature_extraction.rst: urlretrieve (gh + "/src/data/FeatureFinderMetaboIdent_1_input.mzML", "ms_data.mzML") ./docs/source/metabolomics_targeted_feature_extraction.rst: urlretrieve (gh + "/src/data/FeatureFinderMetaboIdent_1_input.tsv", "library.tsv") ./docs/source/peptide_search.rst: urlretrieve (gh +"/src/data/SimpleSearchEngine_1.mzML", "searchfile.mzML") ./docs/source/peptide_search.rst: urlretrieve (gh +"/src/data/SimpleSearchEngine_1.fasta", "search.fasta") ./docs/source/first_steps.rst: urlretrieve (gh + "/src/data/tiny.mzML", "tiny.mzML") ./docs/source/first_steps.rst: urlretrieve (gh + "/src/data/FeatureFinderMetaboIdent_1_input.mzML", "ms_data.mzML") ./docs/source/spectrumalignment.rst: urlretrieve (gh + "/src/data/YIC(Carbamidomethyl)DNQDTISSK.mzML", "observed.mzML") ./docs/source/file_handling.rst: urlretrieve (gh + "/src/data/tiny.mzML", "test.mzML") ./docs/source/mzqc_export.rst: urlretrieve (gh + "/src/data/QCCalculator_input.mzML", 'input.mzML') ./docs/source/mzqc_export.rst: urlretrieve (gh + "/src/data/FeatureFinderMetaboIdent_1_output.featureXML", 'features.featureXML') ./docs/source/mzqc_export.rst: urlretrieve (gh + "/src/data/OpenPepXL_output.idXML", 'ids.idXML') ./docs/source/digestion.rst: urlretrieve (gh + "/src/data/P02769.fasta", "bsa.fasta") ./docs/source/digestion.rst: urlretrieve (gh + "/src/data/P02769.fasta", "bsa.fasta") ./docs/source/mzMLFileFormat.rst: urlretrieve (gh + "/src/data/tiny.mzML", "test.mzML") ./docs/source/chromatographic_analysis.rst: urlretrieve (gh + "/src/data/OpenSwathAnalyzer_1_input_chrom.mzML", "chrom.mzML") ./docs/source/chromatographic_analysis.rst: urlretrieve (gh + "/src/data/OpenSwathAnalyzer_1_input.TraML", "transitions.TraML") ./docs/source/hyperscore.rst: urlretrieve (gh + "/src/data/SimpleSearchEngine_1.mzML", "searchfile.mzML") ./docs/source/deisotoping.rst: urlretrieve (gh + "/src/data/BSA1.mzML", "BSA1.mzML") ./docs/source/algorithms.rst: urlretrieve (gh + "/src/data/tiny.mzML", "test.mzML") ./docs/source/feature_linking.rst: urlretrieve (base_url + feature_file, feature_file) ./docs/source/datastructures_peak.rst: urlretrieve (gh + "/src/data/FeatureFinderMetaboIdent_1_input.mzML", "test.mzML") ./docs/source/datastructures_peak.rst: urlretrieve (gh + "/src/data/tiny.mzML", "test.mzML") ./docs/source/map_alignment.rst: urlretrieve (base_url + feature_file, feature_file) ./docs/source/normalization.rst: urlretrieve (gh + "/src/data/peakpicker_tutorial_1_baseline_filtered.mzML", "tutorial.mzML")
fixes #76
Some of the URLs were set incorrectly. All files are already in
src/data/.Please let me know if you think anything else is missing.
IMHO should be all: