This is a test version of Biostars. For the public version, visit https://www.biostars.org.
vcftools tools install on ubuntu 14.04

I an installing vcftools from github and have two questions:

1. where do I put the samtools1.2 folder so that the tabix and bgzip index can be used. I added it to path but am not sure where i should put the download.

2. I am following the install guide as posted on github and not able to do the ./configure or make. Code: bash: ./configure: No such file or directory

make: *** No targets specified and no makefile found. Stop.

Thank you :). I apologize for the being hard to read, I am using a blackberry and cannot seem to format.

vcftools
• 4,276 views • link
updated by kloetzl kloetzl • written by bioguy24 bioguy24

1 answer

2) run autoreconf -i in the main directory. Then you can continue with ./configure; make etc.

• 0 views • link
written by kloetzl kloetzl

That worked but now I am getting an error on the make install

Making install in src
make[1]: Entering directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src'
Making install in cpp
make[2]: Entering directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src/cpp'
make[3]: Entering directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src/cpp'
 /bin/mkdir -p '/usr/local/bin'
  /usr/bin/install -c vcftools '/usr/local/bin'
/usr/bin/install: cannot create regular file ‘/usr/local/bin/vcftools’: Permission denied
make[3]: *** [install-binPROGRAMS] Error 1
make[3]: Leaving directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src/cpp'
make[2]: *** [install-am] Error 2
make[2]: Leaving directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src/cpp'
make[1]: *** [install-recursive] Error 1
make[1]: Leaving directory `/home/cmccabe/Desktop/ngs_analysis/vcftools-0.1.14/src'
make: *** [install-recursive] Error 1


Thank you :).

• 0 views • link
written by bioguy24 bioguy24

try sudo make install

• 0 views • link
written by kloetzl kloetzl
Thank you very much for your help :)
• 0 views • link
written by bioguy24 bioguy24

Log in to answer this question.

More posts like this