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xia-lab / MetaboAnalystR

R package for MetaboAnalyst
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PerformIntegGeneMapping & PerformIntegCmpdMapping seems to be missing in latest version #265

Open sid5427 opened 1 year ago

sid5427 commented 1 year ago

Good day @Zhiqiang-PANG

I just installed the latest version of the tool and after trying the Integrated pathway tutorial - I seem to be getting this error. 

mSet<-PerformIntegGeneMapping(mSet, geneList, "hsa", "symbol");
Error in PerformIntegGeneMapping(mSet, geneList, "hsa", "symbol") : 
  could not find function "PerformIntegGeneMapping"

and

mSet<-PerformIntegCmpdMapping(mSet, cmpdList, "hsa", "kegg");
Error in PerformIntegCmpdMapping(mSet, cmpdList, "hsa", "kegg") : 
  could not find function "PerformIntegCmpdMapping"

It looks like the latest version can't seem to to find these two functions...

Installed version - MetaboAnalystR 3.3.0 R version - R version 4.2.1 (2022-06-23 ucrt)

I tried to install the older version of metaboanalyst as well, but those seem to have issues connecting to the annotation database. Would appreciate any help fixing this issue.

devenderarora commented 1 year ago

Did you find any answer as I tried with the latest and older version of metaboanalystR and having the exact same issue

ausdrehBio commented 1 year ago

Same here. Running on macOS arm Couldnt find these functions in the repository either

Shujian-Zheng commented 1 year ago

I also faced the same issue: Error in PerformIntegGeneMapping(mSet, geneList, "hsa", "symbol") : could not find function "PerformIntegGeneMapping"