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bigbio / proteomics-sample-metadata

The Proteomics Experimental Design file format: Standard for experimental design annotation
GNU General Public License v2.0
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SDRF error: Value is not match with ontology #704

Open ChuweiLin opened 3 months ago

ChuweiLin commented 3 months ago

I always use the same SDRF temple. 2024-4-4 it worked, no error, but today it said 'Value is not match with ontology'. I can't tell what is wrong here. I am using px-submission 2.7.3 Here is the file: sdrf_lysate.txt

2024-04-22 14:54:18,220 INFO [pool-1-thread-3] u.a.e.p.s.v.Main [Main.java:111] ERROR : Value is not match with ontology', value='nt=orbitrap eclipse', row=1, column='comment[instrument]' 2024-04-22 14:54:18,221 INFO [pool-1-thread-3] u.a.e.p.s.v.Main [Main.java:111] ERROR : Value is not match with ontology', value='nt=trypsin', row=1, column='comment[cleavage agent details]' 2024-04-22 14:54:18,221 INFO [pool-1-thread-3] u.a.e.p.s.v.Main [Main.java:111] ERROR : Value is not match with ontology', value='nt=lys-c', row=1, column='comment[cleavage agent details]' 2024-04-22 14:54:18,221 ERROR [pool-1-thread-3] u.a.e.p.g.t.FileScanAndValidationTask [FileScanAndValidationTask.java:316] Error in file sdrf.tsvPlease make sure you upload proper EXPERIMENTAL_DESIGN file sdrf.tsv 2024-04-22 14:54:18,221 ERROR [pool-1-thread-3] u.a.e.p.g.t.FileScanAndValidationTask [FileScanAndValidationTask.java:318] Value is not match with ontology 2024-04-22 14:54:18,221 ERROR [pool-1-thread-3] u.a.e.p.g.t.FileScanAndValidationTask [FileScanAndValidationTask.java:318] Value is not match with ontology 2024-04-22 14:54:18,221 ERROR [pool-1-thread-3] u.a.e.p.g.t.FileScanAndValidationTask [FileScanAndValidationTask.java:318] Value is not match with ontology

deeptijk commented 3 months ago

@ChuweiLin could you please attach your sdrf file

ypriverol commented 3 months ago

Also @ChuweiLin the tool that you are using to validate the file?