• Sign In

Search site

HIV Study Tutorial
Found 314 results
Displaying page 5 of 16

"LabKey List Error" attached to message "Error when loading custom list field definitions?"

ERROR BaseRemoteService 2009-08-14 11:19:44,885 http-8080-Processor22 : GWT Service Error org.apache.commons.beanutils.ConversionException at org.labkey.api.data.ConvertHelper$_IntegerConverter.convert(ConvertHelper.java:457) at org.apache.commons.beanutils.ConvertUtilsBean.convert(ConvertUtilsBean.java:428) at org.apache.commons.beanutils.ConvertUtils.convert(ConvertUtils.java:217) ...

"labkey.log" attached to message "HTTP 500 Bad SQL Grammar by SqlScriptRunner during module update on LabKey startup RHEL 7.3"

INFO ModuleLoader 2017-04-05 23:20:53,578 localhost-startStop-1 : __ || | _ |_ |/ _ (¯ _ _ _ _ (__) |_(_||_)|\(/_\/ _)(/_| \/(/_| / INFO DbScope 2017-04-05 23:20:58,263 localhost-startStop-1 : Initializing DbScope with the following configuration: DataSource Name:...

Query Metadata: Examples

This topic provides examples of metadataSql used to change the display and behavior of fields in tables and queries. Auditing Level Conditional Formatting Include Row Selection Checkboxes Hide a Field from Users Show/Hide Columns on Insert and/or Update Use a Format String for Display Use a Text Expression for Display Set a Display Width for a Column Display Columns in Specific Order...

Issue tracker email notification problem

We have been having notification problems from the Issue tracker. I've been able to reproduce the problem by impersonating a user and submitting an issue without assigning it to an individual. No error occurs on the initial submission but when the issue is updated and assigned, the following error appears in labkey-error.log. ERROR IssuesController 2009-10-30 10:16:40,568 http-8443-Processor13...

Ontology Lookup

Premium Feature — Available in the Enterprise Edition of LabKey Server. Learn more or contact LabKey. Ontology Lookup Data Type Lookup Rules Usage Example Concept Picker for Insert/Update with Type-ahead Initialize Expected Vocabulary Ontology Lookup Data Type Once an ontology has been loaded and the module enabled in your folder, the fieldEditor will include an Ontology Lookup data...

LSID generation for Study datasets

Labkey server version 12.1 I'm trying to setup a study dataset, called Progress Notes, which will allows N number of entries, ie. rows, for any participant and is not tied to a visit (Sequence Number). In order to achieve this I performed the following steps when creating the dataset: 1. Marked the dataset as a 'demographic' dataset. I'm assuming, please correct me if I'm wrong, that a demographic...

job stuck waiting status

Hi,    a user submit a job but it is stuck in waiting status in the activemq log after it finish the first FAASTA check. 01 Dec 2017 11:40:26,278 INFO : X! Tandem search for all 01 Dec 2017 11:40:26,281 INFO : ======================================= 01 Dec 2017 11:40:26,283 INFO : abac.mzXML 01 Dec 2017 11:40:26,285 INFO : casfdsa.mzXML 01 Dec 2017 11:40:26,287 INFO : cafdsa.mzXML 01 Dec...

MS@ load error

I'm running the Sequest Pipeline just to validate that it is completing the pipeline. So I ran one of the CPASDemo files against a handy database (I think Mouse-Human, not yeast), using default params (not ICAT). I didn't expect good results but I did expect it to complete. I'm getting the error below. I've attached the pep.xml. Thanks, Bill 22 Oct 2007 23:36:52,718 DEBUG: Done creating FASTA...

dataset5004.tsv

ParticipantId date QCStateLabel Weight_kg Temp_C SystolicBloodPressure DiastolicBloodPressure Pulse Respirations Signature Pregnancy Language ARV ARVtype height_cm 101344 2008-04-27 00:00:00.0 68 37.0 117 83 61 173.0 101344 2008-05-25 00:00:00.0 69 36.8 145 103 71 175.0 101344 2008-06-22 00:00:00.0 71 38.2 166 101 68 175.0 101344 2008-08-17 00:00:00.0 73 36.5 125 95 74 ...

RLabkey makeFilter with filters as variable?

This is hopefully a simple question for anyone who knows R better. RLabkey allows you to make a filter using the makeFilter function: makeFilter(c('myColumn', EQUALS,'value1'), c('myColumn2',EQUALS,'value2)) you can see that makeFilter uses R's elipsis argument, and this is read as a vector of vectors (i think?): https://github.com/cran/Rlabkey/blob/49299ba7b5eaf5127d8dca8dba2f38739dff6454...

Data Grids and updating the URL to reflect current state

executeQuery.view does an excellent job of updating the page URL to keep track of the current filters, sorting and paging, such that if a user follows a link from the data grid and then uses the back button, the page is the same as when they left it. However, executeQuery.view isn't easy to extend without writing Java code. I frequently use javascript QueryWebParts so that I can easily customize and...

Manage Freezer Locations

Organizations managing multiple freezers may find it helpful to organize them by physical location, particularly when they may be in different rooms, on different floors, or even in different buildings across a campus. You could keep track of locations of your freezers by using the "Description" field in a freezer definition, but those details are only available when viewing the freezer details. By...

Database Question

Hello, I have some javascript with embedded sql that when i run the query on a labkey installation running on postgres installation it works fine but on a labkey installation that is under MSSQL i get the error message: Conversion failed when converting the varchar value '%,' to data type int. Any recommendations as to what the difference may be between the two installations that would prevent...

"ZS3_interact.prot.xml.log" attached to message "Can the CPAS work with the TPP results?"

12 һ�� 2008 11:25:48,859 INFO : Starting to load ProteinProphet file C:\CPAS\ZS3\ZS3_interact.prot.xml 12 һ�� 2008 11:25:48,859 INFO : Resolved referenced PepXML file to c:\Inetpub\wwwroot\ISB\data\ZS3\ZS3_interact.xml 12 һ�� 2008 11:25:48,875 INFO : Clearing out existing MS2 data for ZS3_interact.xml 12 һ�� 2008 11:25:48,906 INFO : Finished clearing out existing MS2 data for ZS3_interact.xml...

Error importing protein prophet file

With version 2.3 importing protein prophet fails with the following message: 18 一月 2008 10:28:25,577 INFO : Starting to load ProteinProphet file F:\Chi\20071204_SILAC\mascot\interact\XP0.036areainteract.prot.xml 18 一月 2008 10:28:25,624 INFO : Resolved referenced PepXML file to F:\Chi\20071204_SILAC\mascot\interact\XP0.036areainteract.pep.xml 18 一月 2008 10:28:25,624 INFO : Clearing out existing...

Mascot2XML prev_aa

I'm getting an mz/mz results loading error using Mascot with the cluster pipeline. It seems to be related to a Mascot2XML problem that had a fix posted about a year ago on this supprt board. Manually looking in the pep.xml file I cannot find any weird charaters at the peptide_prev_aa attributes. The same search works fine with xtandem. ./Mascot2XML(TPP v3.3 SQUALL rev.1, Build 200711050856)...

Sample ID Naming

Each Sample and Source in the system must have a unique name/id within its type. The unique names can be provided by the user, or can be generated by the system. When you ask the system to generate names, you specify a Naming Pattern to use. For each type, you will choose one of these two options. If you already use a unique naming structure outside the system, you will want to ensure those names...

"BadSQLGrammarError.txt" attached to message "Bad SQL grammar error when deleting project"

org.springframework.jdbc.BadSqlGrammarException: SqlExecutor.execute(); bad SQL grammar []; nested exception is org.postgresql.util.PSQLException: ERROR: relation "gw_labkey.x_lk_outbd_specimens" does not exist Position: 13 at org.springframework.jdbc.support.SQLErrorCodeSQLExceptionTranslator.doTranslate(SQLErrorCodeSQLExceptionTranslator.java:231) at org.springframework.jdbc.supp...

Error: Search is disabled because the search index is misconfigured. Contact the system administrator of this server.

Hi! I have this problem, how Can I fixit? thanks! org.apache.lucene.store.LockObtainFailedException: Lock held by this virtual machine: C:\Program Files\Apache Software Foundation\Tomcat 8.5\temp\labkey_full_text_index\write.lock at org.apache.lucene.store.NativeFSLockFactory.obtainFSLock(NativeFSLockFactory.java:127) at org.apache.lucene.store.FSLockFactory.obtainLock(FSLockFactory.java:41) ...

500 server error and api issue

hello i have uploaded a rather large dataset and am currently getting the following message. any details could be helpful. 500: Unexpected server error org.labkey.experiment.api.ExpObjectImpl Home Back Folder java.lang.NoClassDefFoundError: org.labkey.experiment.api.ExpObjectImpl        at org.labkey.experiment.api.ExperimentServiceImpl.getExpProtocol(ExperimentServiceImpl.java:561)...