Orthomcl Pairs
I ran orthomclpairs on the similarSequences table and I got intermediate tables with data but no rows were populated in the Ortholog,CoOrtholog or Inparalog tables. Can anyone give me a clue as to why that happened?
orthomcl
• 2,265 views
•
link
updated
by
Biostar
•
written
by
jollymrt •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Illumina MiSeq produces low raw reads
written by msdoble.a •Hi, I ran a MiSeq sequencing with target of 200k raw reads per sample. However, I could not get raw reads higher than this for …
-
Orthomcl install schema error
written by max_19Hi all! I'm trying to run Orthomcl, I got to step 4 ( http://orthomcl.org/common/downloads/software/v2.0/UserGuide.txt ) however running orthomclInstallSchema keeps resulting in an error for me. …
-
OrthoMCL issue with BLAST and mySQL
written by merwright •I'm having a problem with orthoMCL at the "orthomclPairs" stage; it is being caused from an earlier action between the BLAST and relational database step. …
-
orthomclInstallSchema issue in OrthoMCL program
written by wangdp123Hi there, I have been struggling with the analysis of data on OrthoMCL program and it always come up with the issue as follows when …
-
Error running OrthoMCL
written by johane92 •Hi all, I'm developing a pipeline for using OrthoMCL and I can't get around an error that occurs when running OrthoMCLPairs: DBD::mysql::st execute failed: Table …
-
Problem when installing orthomcl in step 4: orthomclInstallSchema
written by zengxi.hadaI was installing the software orthomcl according to the user guide in http://www.orthomcl.org/common/downloads/software/v2.0/UserGuide.txt. When I processed to "Step 4: orthomclInstallSchema", I encountered problems. ``` $ …
-
orthomcl error: DBD::mysql::st execute failed: The table 'SimilarSequences' is full at ***
written by yangyongzhi2008 •When I use orthomclLoadBlast, I got an error message. DBD::mysql::st execute failed: The table 'SimilarSequences' is full at /tool/orthomcl/orthomclSoftware-v2.0.9/bin/orthomclLoadBlast line 39, <F> line 14. My …
-
Orthomcl Pairs
written by jollymrt •<p>hi all, i am getting a populated InParalog table but empty ortholog and coortholog tables, i have set the % match to 20% but still …
-
Orthomcl Pairs
written by jollymrt •<p>I am running orthomclPairs and getting the following error : Unknown column 'taxon_id_a' in 'field list' at orthomclPairs line 693,</p> <p>the ortholog table has been …
-
Orthomclpairs Doesnt Work
written by User 4041 •Hello everyone, I have done the orthomclLoadBlast step before the orthomclPairs successfully and obtained a SimilarSequences table in the orthomcl database that I created. The …
edit: sorry, I thought you were still in parser step!