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tripal / tripal_analysis_expression

Extension module for the Tripal toolset to show differential expression data. This module was made for Drupal 7, Tripal 3, and Chado 1.3.
GNU General Public License v2.0
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Error when loading ECO #374

Closed sookjc closed 2 years ago

sookjc commented 3 years ago

The error message is below.

Downloading URL https://raw.githubusercontent.com/evidenceontology/evidenceontology/master/eco.obo, saving to /tmp/obo_01iaV4 Step 1: Preloading File /tmp/obo_01iaV4... Found the following namespaces: eco.0,444,576 bytes. Step 2: Examining relationships... A term that belongs to another ontology is used within this vocabulary. Therefore a lookup will be performed with the EBI Ontology Lookup Service to retrieve the information for this term. Please note, that vocabularies with many non-local terms require remote lookups and these lookups can dramatically increase loading time. Performing EBI OLS Lookup for: OBI:0000312 Cannot find the term via an EBI OLS lookup: OBI:0000312. We tried to access: http://www.ebi.ac.uk/ols/api/ontologies/obi/terms/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FOBI_0000312 EBI Reported: Resource not found. Consider finding the OBO file for this ontology and manually loading it first. Performing EBI OLS Lookup for: OBI:0000623 Found OBI:0000623 in EBI OLS. Step 3: Loading type defs... Step 4: Loading terms... %. Memory: 80,959,168 bytes. ChadoRecord::setValue(). The column named, "is_obsolete", requires a value for the table: "cvterm". [site http://dev.rosaceae.org] [TRIPAL ERROR] [TRIPAL_JOB] ChadoRecord::setValue(). The column named, "is_obsolete", requires a value for the table: "cvterm".

spficklin commented 2 years ago

Hey @sookjc . I believe this is a core Tripal bug issue and not a problem with this module. This issue has been here for quite awhile. If you all are still having this problem can you open an issue over on the Tripal issue queue?