Question: Install RepeatMasker "Enter path" problems
0
gravatar for xhfeng0307
18 months ago by
xhfeng03070
xhfeng03070 wrote:

Hello, When I install RepeatMasker, in the last "Enter path" step, it shows problems as:

Enter path [ /usr/local/RepeatMasker ]: 
RepBase RepeatMasker Edition database changed ( RELEASE = 20181026 ).
Rebuilding RepeatMaskerLib.embl library
  - Read in 312 sequences from /usr/local/RepeatMasker/Libraries/DfamConsensus.embl
  - Read in 49011 sequences from /usr/local/RepeatMasker/Libraries/RMRBSeqs.embl
  - Read in 49011 annotations from /usr/local/RepeatMasker/Libraries/RMRBMeta.embl
  Saving RepeatMaskerLib.embl library...**() Unable to open file /usr/local/RepeatMasker/Libraries/RepeatMaskerLib.embl for writing: Permission denied**

Can anyone can help? Thanks so much.

software error • 933 views
ADD COMMENTlink modified 18 months ago by Pierre Lindenbaum130k • written 18 months ago by xhfeng03070
2
gravatar for Pierre Lindenbaum
18 months ago by
France/Nantes/Institut du Thorax - INSERM UMR1087
Pierre Lindenbaum130k wrote:

run as sudo

https://xkcd.com/149/

ADD COMMENTlink modified 18 months ago • written 18 months ago by Pierre Lindenbaum130k

Thanks, it worked! I run "sudo perl ./configure"

ADD REPLYlink modified 18 months ago • written 18 months ago by xhfeng03070

Never user sudo to install a program without the package manager of your distribution. Doing this you deploy files across your system that are unknown to the package manager. It is very likely, that you will run into problems sooner or later, if you try to install a package and the package manager detect that there are already files with the same name and location.

The cleaner way is to use conda. Here the first part of the tutorial I wrote some time ago might be useful for you.

ADD REPLYlink written 18 months ago by finswimmer13k

Thanks so much for your suggestions. I will check that to see.

ADD REPLYlink written 18 months ago by xhfeng03070
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