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HIV Study Tutorial
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02-14A22-IgA-Biotin.xls

ENV1 (31) File Name: 02-14A22-IgA-Biotin.srbx Analyte: ENV1 (31) Acquisition Date: 21-Jun-2011, 01:50 PM Reader Serial Number: LX10011084403 Standard Lot: Standard1 Expiration Date: <none> Plate ID: 02-14A22 Signed By: Josh Eckels Document ID: 9998 RP1 PMT (Volts): 687.42 RP1 Target: 16357 Analyte Type Well Description FI FI - Bkgd Std Dev %CV Obs Conc Exp Conc (Obs/Exp) * 100 Group Ratio...

06-15A12-IgA-Biotin.xls

ENV1 (31) File Name: 06-15A12-IgA-Biotin.srbx Analyte: ENV1 (31) Acquisition Date: 24-Jun-2011, 02:10 PM Reader Serial Number: LX10007031402 Standard Lot: Standard1 Expiration Date: <none> Plate ID: 06-15A12 Signed By: Cory Nathe Document ID: 9999 RP1 PMT (Volts): 738.22 RP1 Target: 16357 Analyte Type Well Description FI FI - Bkgd Std Dev %CV Obs Conc Exp Conc (Obs/Exp) * 100 Group Ratio...

02-14A22-IgA-Biotin.xls

ENV1 (31) File Name: 02-14A22-IgA-Biotin.srbx Analyte: ENV1 (31) Acquisition Date: 21-Jun-2011, 01:50 PM Reader Serial Number: LX10011084403 Standard Lot: Standard1 Expiration Date: <none> Plate ID: 02-14A22 Signed By: Josh Eckels Document ID: 9998 RP1 PMT (Volts): 687.42 RP1 Target: 16357 Analyte Type Well Description FI FI - Bkgd Std Dev %CV Obs Conc Exp Conc (Obs/Exp) * 100 Group Ratio...

"cleavableICAT_ms2x2_2.log" attached to message "MASCOT on a remote server, Database error"

30 Mar 2007 11:56:15,545 INFO : Mascot search for cleavableICAT_ms2x2_2.mzXML 30 Mar 2007 11:56:15,546 INFO : ======================================= 30 Mar 2007 11:56:48,260 INFO : MzXML2Search output 30 Mar 2007 11:56:48,260 INFO : ======================================= 30 Mar 2007 11:56:50,128 INFO : running: MzXML2Search -mgf cleavableICAT_ms2x2_2.mzXML 30 Mar 2007 11:56:50,151 INFO : 30 Mar...

"SmallICAT.log" attached to message "CPAS / Mascot Timeout"

25 Jan 2007 08:40:34,716 INFO : Mascot search for SmallICAT.mzXML 25 Jan 2007 08:40:34,716 INFO : ======================================= 25 Jan 2007 08:40:34,781 INFO : MzXML2Search output 25 Jan 2007 08:40:34,781 INFO : ======================================= 25 Jan 2007 08:40:34,885 INFO : running: MzXML2Search -mgf SmallICAT.mzXML 25 Jan 2007 08:40:34,909 INFO : 25 Jan 2007 08:40:34,909 INFO...

"cpas.log" attached to message "500: Unexpected server error"

11 Jan 2006 14:02:23,381 DEBUG ModuleLoader : ModuleLoader init 11 Jan 2006 14:02:23,568 DEBUG CoreModule : Ensuring databases are present 11 Jan 2006 14:02:23,578 ERROR ModuleLoader : Failure ocurred during ModuleLoader init. java.lang.NoClassDefFoundError: org/apache/tomcat/dbcp/dbcp/BasicDataSource at org.fhcrc.cpas.module.CoreModule.ensureDataBases(CoreModule.java:86) at org.fhcrc.cpas.module.ModuleLoader.doInit(ModuleLoader.java:145)...

"log_0207.txt" attached to message "Mascot upload"

07 Feb 2007 11:59:07,159 INFO : Mascot search for u937_1.mzXML 07 Feb 2007 11:59:07,159 INFO : ======================================= 07 Feb 2007 11:59:07,222 INFO : MzXML2Search output 07 Feb 2007 11:59:07,222 INFO : ======================================= 07 Feb 2007 11:59:07,470 INFO : running: MzXML2Search -mgf u937_1.mzXML 07 Feb 2007 11:59:07,515 INFO : 07 Feb 2007 11:59:07,515 INFO...

"labkey-6df4966d86-mhxvn_labkey.log" attached to message "Unable to get 24.3.4 working on my institution's container-based platform for deploying apps"

Executing entrypoint main function... Entering labkey home directory at /usr/local/labkey... sleeping for 0 seconds... Adding secrets to config/application.properties from environment variables... Adding database and smtp settings to config/application.properties from environment variables... Purging secrets and other bits from environment variables... saw JSON_OUTPUT=false and LOG4J_CONFIG_FILE=log4j2.xml...

Luminex_Assay_200-2015-06-09-1237.tsv

container date wellRole fiBackgroundNegative stdCurve fiOORIndicator specimenID type singlePointControl excluded samplingErrors protocol regressionType outlier resVar fiBackground fiBackgroundString dilution name extraSpecimenInfo stdDevOORIndicator expConc stdDev maxStandardRecovery obsConc fi obsConcOORIndicator minStandardRecovery obsConcString beadCount description lsid dataId fiString obsOverExp...

"labkey-5ff5c84c45-g5r4f_labkey.log" attached to message "Unable to get 24.3.4 working on my institution's container-based platform for deploying apps"

Executing entrypoint main function... Entering labkey home directory at /usr/local/labkey... sleeping for 0 seconds... Adding secrets to config/application.properties from environment variables... Adding database and smtp settings to config/application.properties from environment variables... Purging secrets and other bits from environment variables... saw JSON_OUTPUT=false and LOG4J_CONFIG_FILE=log4j2.xml...

"error.log" attached to message "Error comparing MS2 runs"

ERROR Table 2008-04-22 12:20:05,726 t: http-8080-Processor17 : internalExecuteQuery org.postgresql.util.PSQLException: ERROR: integer out of range at org.postgresql.core.v3.QueryExecutorImpl.receiveErrorResponse(QueryExecutorImpl.java:1592) at org.postgresql.core.v3.QueryExecutorImpl.processResults(QueryExecutorImpl.java:1327) at org.postgresql.core.v3.QueryExecutorImpl.execute(QueryExecutorImpl.java:192)...

"logfile.txt" attached to message "Failed to remove work directory"

29 дек 2008 13:07:14,338 INFO : Check FASTA validity 29 дек 2008 13:07:14,338 INFO : ======================================= 29 дек 2008 13:07:14,338 INFO : 29 дек 2008 13:07:15,260 INFO : MzXML2Search output 29 дек 2008 13:07:15,260 INFO : ======================================= 29 дек 2008 13:07:15,260 INFO : running: MzXML2Search -mgf 9_1-F,8_01_3855.mzXML 29 дек 2008 13:07:15,307 INFO :...

"MarkeyLog09Mar16_OT_03.txt" attached to message "Processsing Errors preclude access to valid search results"

21 Dec 2010 16:06:19,457 INFO : Starting to run task 'org.labkey.ms2.pipeline.mascot.MascotSearchTask' at location 'webserver' 21 Dec 2010 16:06:19,488 INFO : Copying E:\Sandy\Dhaval\Controls\@files\Control\09MAR16_OT_03.mzXML to E:\Sandy\Dhaval\Controls\@files\Control\mascot\remainingS2_filesDec21_Copy6\09MAR16_OT_03.work\09MAR16_OT_03.mzXML 21 Dec 2010 16:06:21,739 INFO : MzXML2Search output 21...

"ms2.module" attached to message "Mascot error in CPAS"

META-INF/MANIFEST.MF Manifest-Version: 1.0 Ant-Version: Apache Ant 1.6.5 Created-By: 1.5.0_06-b05 (Sun Microsystems Inc.) ModuleClass: org.labkey.ms2.MS2Module SVNRevision: Not built from a Subversion source tree SVNURL: Not built from a Subversion source tree BuildUser: CheeHong BuildTime: March 15 2008, 1:09 AM BuildOS: Windows XP BuildPath: F:\\CPL\\tor\\stedi\\branches\\release2.3\\server\\modules\...

"ms2.module" attached to message "Mascot error in CPAS"

META-INF/MANIFEST.MF Manifest-Version: 1.0 Ant-Version: Apache Ant 1.6.5 Created-By: 1.5.0_06-b05 (Sun Microsystems Inc.) ModuleClass: org.labkey.ms2.MS2Module SVNRevision: Not built from a Subversion source tree SVNURL: Not built from a Subversion source tree BuildUser: CheeHong BuildTime: March 12 2008, 6:05 PM BuildOS: Windows XP BuildPath: F:\\CPL\\tor\\stedi\\branches\\release2.3\\server\\modules\...

"SmallCAT.log" attached to message "Mascot error in CPAS"

12 Mar 2008 13:31:29,876 INFO : Mascot search for SmallICAT.mzXML 12 Mar 2008 13:31:29,878 INFO : ======================================= 12 Mar 2008 13:31:29,945 INFO : MzXML2Search output 12 Mar 2008 13:31:29,952 INFO : ======================================= 12 Mar 2008 13:31:30,804 INFO : running: MzXML2Search -mgf SmallICAT.mzXML 12 Mar 2008 13:31:30,845 INFO : 12 Mar 2008 13:31:30,846 INFO...

Luminex_Assay_200-2015-06-09-1233.tsv

container date wellRole fiBackgroundNegative stdCurve fiOORIndicator specimenID type singlePointControl excluded samplingErrors protocol regressionType outlier resVar fiBackground fiBackgroundString dilution name extraSpecimenInfo stdDevOORIndicator expConc stdDev maxStandardRecovery obsConc fi obsConcOORIndicator minStandardRecovery obsConcString beadCount description lsid dataId fiString obsOverExp...

"09FEB02_OT_57.log" attached to message "Java Heap Memory Errors"

03 Nov 2010 17:25:47,334 INFO : Starting to run task 'org.labkey.ms2.pipeline.mascot.MascotSearchTask' at location 'webserver' 03 Nov 2010 17:25:47,334 INFO : Copying E:\Sandy\Dhaval\Controls\@files\Control\09FEB02_OT_57.mzXML to E:\Sandy\Dhaval\Controls\@files\Control\mascot\PSD_protocol_Copy9\09FEB02_OT_57.work\09FEB02_OT_57.mzXML 03 Nov 2010 17:25:47,397 INFO : MzXML2Search output 03 Nov 2010...

"G24_MSMS_1614.9180_11.t2d.mzXML" attached to message "Help on t2d format"

QFF5B8UIsWsAAAAAAAAAAEBRea/7Spu8AAAAAAAAAABAUXpYNLgyggAAAAAAAAAAQFF7AHFRddkAAAAAAAAAAEBRe6ixFmXgQBCgoKAAAABAUXxQ9AcCskA0AAAAAAAAQFF8+TojTiJAKlpaYAAAAEBRfaGDa0TnQCG5ucAAAABAUX5Jz97qgj/rm5ugAAAAQFF+8h9+PWE/4ZGRoAAAAEBRf5pyST2eP84eHkAAAABAUYBCyD/rWj+0FBQgAAAAQFGA6yFiSGIAAAAAAAAAAEBRgZN9sFMjAAAAAAAAAABAUYI73SoKBAAAAAAAAAAAQFGC5D/PcI4AAAAAAAAAAEBRg4yloIUmAAAAAAAAAABAUYQ1Dp1H7AAAAAAAAAAAQFGE3XrFuPwAAAAAAAAAAEBRhYXqGdorAAAAAAAAAABAUYYuXJmoKQAAAAAAAAAAQFGG1tJFJoA...

"cpas[1].log.1" attached to message "500: Unexpected server error"

03 Feb 2006 10:46:57,287 ERROR Global : Unhandled exception caught in Global.app: 500: Unexpected server error java.lang.RuntimeException: java.lang.reflect.InvocationTargetException at org.fhcrc.cpas.util.BoundMap.get(BoundMap.java:89) at org.fhcrc.cpas.view.GroovyView.createModelBinding(GroovyView.java:475) at org.fhcrc.cpas.view.GroovyView.renderView(GroovyView.java:447) at org.fhcrc.cpas.view.WebPartView.render(WebPartView.java:123)...