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Add example files processed on Linux
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AScore_Console/Data/MSGFPlus_ITRAQ4plex_mzML/Linux/AScore_ConsoleOutput.txt
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AScore version 1.0.7537.24916 (August 20, 2020) | ||
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CID Mass Tolerance: 0.5 Da | ||
ETD Mass Tolerance: 0.5 Da | ||
HCD Mass Tolerance: 0.05 Da | ||
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Caching data in data/MSGFPlus_ITRAQ4plex_mzML/Dataset_W_S2_Fr_04_2May17_msgfplus_syn.txt | ||
Output directory: /home/d3l243/AScore/data/MSGFPlus_ITRAQ4plex_mzML | ||
Opening data/MSGFPlus_ITRAQ4plex_mzML/Dataset_W_S2_Fr_04_2May17.mzML | ||
Filtering using MSGF_SpecProb <= 1.0E-07 | ||
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Dataset name: Dataset_W_S2_Fr_04_2May17 | ||
Loaded modifications from: Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ModSummary.txt | ||
Static, 57.021465 on C | ||
Static, 229.162933 on K | ||
Dynamic, 15.994915 on M | ||
Terminus, 229.162933 on < | ||
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Percent Completion 87% | ||
Writing 344 rows to /.../MSGFPlus_ITRAQ4plex_mzML/Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore.txt | ||
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Stats by fragmentation ion type: | ||
CID peptides: 0 | ||
ETD peptides: 0 | ||
HCD peptides: 344 | ||
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Checking for write permission by creating file /home/d3l243/AScore/TempFileToTestFileIOPermissions.tmp | ||
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Deleting /home/d3l243/AScore/TempFileToTestFileIOPermissions.tmp | ||
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SQLite DB Path defined: /home/d3l243/AScore/tmpProteinInfoCache.db3 | ||
Processing Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore_Peptides.txt | ||
Preprocessing input file | ||
Running protein coverage summarizer (5.0% complete) | ||
Initializing | ||
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DeleteSQLiteDBFile: File doesn't exist; nothing to do (/home/d3l243/AScore/tmpProteinInfoCache.db3); calling method: clsProteinCoverageSummarizer.ProcessFile_Start | ||
Reading protein input file: H_sapiens_M_musculus_RefSeq_Excerpt.fasta (5.9% complete) | ||
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Connecting to SQLite DB: Data Source=/home/d3l243/AScore/tmpProteinInfoCache.db3; | ||
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Disabling Journaling and setting Synchronous mode to 0 (improves update speed) | ||
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ParseProteinFile: Creating table with CREATE TABLE udtProteinInfoType( Name TEXT, Description TEXT, sequence TEXT, UniquesequenceID INTEGER PRIMARY KEY, PercentCoverage REAL); | ||
Reading protein input file (27.1% complete) | ||
Done: Processed 421 proteins (5,492 lines) | ||
Complete reading protein input file: H_sapiens_M_musculus_RefSeq_Excerpt.fasta (45.5% complete) | ||
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Parsing Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore_Peptides.txt | ||
Reading peptides from Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore_Peptides.txt and finding leader sequences (45.5% complete) | ||
Determining the shortest peptide in the input file (45.5% complete) | ||
Reading peptides from Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore_Peptides.txt and finding leader sequences (leader seq length = 7) (50.0% complete) | ||
Creating the protein to peptide mapping file: Dataset_W_S2_Fr_04_2May17_msgfplus_syn_ascore_Peptides_ProteinToPeptideMapping.txt (50.0% complete) | ||
Comparing proteins to peptide leader sequences | ||
Comparing proteins to peptide leader sequences (54.5% complete) | ||
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Connecting to SQLite DB: Data Source=/home/d3l243/AScore/tmpProteinInfoCache.db3; | ||
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GetCachedProteinFromSQLiteDB: running query SELECT UniqueSequenceID, Name, Description, Sequence, PercentCoverage FROM udtProteinInfoType WHERE UniqueSequenceID BETWEEN 0 AND 49999 | ||
Processing complete; deleting the temporary SQLite database (93.2% complete) | ||
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Closing persistent SQLite connection; calling method: clsProteinCoverageSummarizer.ProcessFile_Complete | ||
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DeleteSQLiteDBFile: Deleting /home/d3l243/AScore/tmpProteinInfoCache.db3; calling method: clsProteinCoverageSummarizer.ProcessFile_Complete | ||
Done (93.2% complete) | ||
Postprocessing (95.0% complete) | ||
Processing successful | ||
AScore Complete | ||
Results merged; new file: /.../MSGFPlus_ITRAQ4ple../Dataset_W_S2_Fr_04_2May17_msgfplus_syn_plus_ascore.txt |
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