I'm having issues with the installation of AGeS on ubuntu
I solved a lot of my compilation problems finally (most were with the kent/src compilation flags).
I did a force install on AGeS because several of the tests failed, but those appeared to be associated with bad scripts on remote computers and the local scripts that interface with those.
I have AGeS, pipa and diya installed along with
blast glimmer MUMmer RepeatFinder tRNAscan-SE
hmmer infernal rnammer
mod_ipr Pipeman
iprscan pftools phobius psort
However, when I load up the AGeS local webpage under "view annotations" (in firefox) the lower frame says "BHSAI
Error 404
Internal Error!
There is an I/O exception on the system. "
I don't know if this is an issue with apache installation, jetty or gbrowse2
Anyone know where I would look for an error log? Anyone have any experience with AGeS installation? Basically, the installation was such a C.F. of installations of packages through apt-get, cpan and manual downloads, configures and makes that I have no idea where to start. Nor do I want to start from scratch, as it took me several days to get to this point.
Also, it says under the annotation tab: started for a local database of mine. The "refresh status" button doesn't appear to be a button and has been saying "started" for the past 2-3 days (admittedly before I had worked out the kinks with gbrowse, diya or PIPA)
Edit: I notice that in the ages tarball that I downloaded, the INSTALL plain text file says that there's a file called ages_run that is referenced in the files in lib/org. This file is not in the tarball as specified. Is this the source of my problem?
I solved a lot of my compilation problems finally (most were with the kent/src compilation flags).
I did a force install on AGeS because several of the tests failed, but those appeared to be associated with bad scripts on remote computers and the local scripts that interface with those.
I have AGeS, pipa and diya installed along with
blast glimmer MUMmer RepeatFinder tRNAscan-SE
hmmer infernal rnammer
mod_ipr Pipeman
iprscan pftools phobius psort
However, when I load up the AGeS local webpage under "view annotations" (in firefox) the lower frame says "BHSAI
Error 404
Internal Error!
There is an I/O exception on the system. "
I don't know if this is an issue with apache installation, jetty or gbrowse2
Anyone know where I would look for an error log? Anyone have any experience with AGeS installation? Basically, the installation was such a C.F. of installations of packages through apt-get, cpan and manual downloads, configures and makes that I have no idea where to start. Nor do I want to start from scratch, as it took me several days to get to this point.
Also, it says under the annotation tab: started for a local database of mine. The "refresh status" button doesn't appear to be a button and has been saying "started" for the past 2-3 days (admittedly before I had worked out the kinks with gbrowse, diya or PIPA)
Edit: I notice that in the ages tarball that I downloaded, the INSTALL plain text file says that there's a file called ages_run that is referenced in the files in lib/org. This file is not in the tarball as specified. Is this the source of my problem?
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