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5.1 years ago
sasmbi06
•
0
Hi , This is Sasikala.
Kindly help me to solve the error while running GeneSCF for user specific organism. Here for ex: ath I have already prepared database for 'ath' for arabidopsis thaliana. BUt I m getting error like this
"processing in 'normal' mode started....Thu Apr 4 14:48:17 IST 2019
=> Finished retriving database...
=> Calculating statistics...
find: ‘ath/class/lib/db/yes/kegg_database.txt’: No such file or directory
Note:Only KEGG and Geneontology supports multiple organisms (GeneSCF-xx/org_codes_help). If you choose REACTOME/NCG database please specify organism as 'Hs'. Currently REACTOME and NCG in GeneSCF only supports Human (Hs).
KEGG last updated
Example input types
---------------
gid | sym
=> Retreving gene list for yes from KEGG
sh: 1: cannot create ath/mapping/DB/CS_CR_UP.list_gene_list.txt: Directory nonexistent
=> Mapping user list
Can't open perl script "ath/class/scripts/mappingIDS.pl": No such file or directory
sh: 1: cannot create ath/mapping/CS_CR_UP.list_input_list.txt: Directory nonexistent
Note: There were 0 genes mapped from 2824 user provided unique genes (0 %)
Please cross-check your gene identifier.Thu Apr 4 14:48:35 IST 2019 finished processing
"
Should I have to edit the script in Functionalclass.pl?? inorder to specify my organism ?? Kindly help me solve this error.. since i am new to all this commands..
Thank you
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