Question: Problem about RepeatModeler: Can't locate RepModelConfig.pm in @INC (you may need to install the RepModelConfig module)
0
gravatar for niuyy9026
20 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 • 982 views
ADD COMMENTlink modified 20 months ago • written 20 months ago by niuyy90260
0
gravatar for niuyy9026
20 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 20 months ago by niuyy90260
1

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

ADD REPLYlink written 20 months ago by jean.elbers1.3k

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 REPLYlink written 20 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 20 months ago • written 20 months ago by jean.elbers1.3k

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

ADD REPLYlink written 20 months ago by niuyy90260
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1687 users visited in the last hour