Problem about RepeatModeler: Can't locate RepModelConfig.pm in @INC (you may need to install the RepModelConfig module)

Question: Problem about RepeatModeler: Can't locate RepModelConfig.pm in @INC (you may need to install the RepModelConfig module)

20 months ago by

niuyy9026 • 0

niuyy9026 • 0 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

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modified 20 months ago • written 20 months ago by niuyy9026 • 0

20 months ago by

niuyy9026 • 0

niuyy9026 • 0 wrote:

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

ADD COMMENT • link written 20 months ago by niuyy9026 • 0

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

ADD REPLY • link written 20 months ago by jean.elbers • 1.3k

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 REPLY • link written 20 months ago by niuyy9026 • 0

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 REPLY • link modified 20 months ago • written 20 months ago by jean.elbers • 1.3k

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

ADD REPLY • link written 20 months ago by niuyy9026 • 0

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