Question: Problem about RepeatModeler: Can't locate RepModelConfig.pm in @INC (you may need to install the RepModelConfig module)
0
gravatar for niuyy9026
14 months ago by
niuyy90260
niuyy90260 wrote:

When I tried to use RepeatModeler at the first step(follow the instruction in http://www.repeatmasker.org/RepeatModeler/ ), I run this command line: perl /usr/local/RepeatModeler-open-1.0.11/BuildDatabase -name elephant.fasta I got some errors like: Can't locate RepModelConfig.pm in @INC (you may need to install the RepModelConfig module) (@INC contains: /usr/local/RepeatModeler-open-1.0.11 /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.22.1 /usr/local/share/perl/5.22.1 /usr/lib/x86_64-linux-gnu/perl5/5.22 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl/5.22 /usr/share/perl/5.22 /usr/local/lib/site_perl /usr/lib/x86_64-linux-gnu/perl-base .) at /usr/local/RepeatModeler-open-1.0.11/BuildDatabase line 149. BEGIN failed--compilation aborted at /usr/local/RepeatModeler-open-1.0.11/BuildDatabase line 149.

Who can help me? Many thanks

software error • 703 views
ADD COMMENTlink modified 14 months ago • written 14 months ago by niuyy90260
0
gravatar for niuyy9026
14 months ago by
niuyy90260
niuyy90260 wrote:

In the RepeatModeler folder, I could find the RepModelConfig.pm.tmpl file. But the error is still there....

ADD COMMENTlink written 14 months ago by niuyy90260
1

What happened when you ran perl ./configure? It sounds like something went wrong during that step.

ADD REPLYlink written 14 months ago by jean.elbers970

Hi Jean,

I think I solved the problem by Copy the file "RepModelConfig.pm.tmpl" to "RepModelConfig.pm". Thank you all the same. I just have another problem with when I run RepeatModeler, the database was generated correctly, but the second step, I just run perl /home/niu/RepeatModeler/RepeatModeler -database elephant >& run.out & Seems like only a run.out file comes out. In the official web, it should output something like RM_[PID].[DATE] ie, right? Any suggestion?

ADD REPLYlink written 14 months ago by niuyy90260
1

what is the contents of run.out? Also, based on the instructions in http://www.repeatmasker.org/RepeatModeler/, your command should be perl /home/niu/RepeatModeler/RepeatModeler -engine ncbi -database elephant >& run.out &

ADD REPLYlink modified 14 months ago • written 14 months ago by jean.elbers970

Sorry for the late response. Thank you very much for your help. I have solved the problem.

ADD REPLYlink written 14 months ago by niuyy90260
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