Question: VCFtools installtion error
0
gravatar for sanjay.deshpande
3.2 years ago by
Japan
sanjay.deshpande50 wrote:

I am trying to install Vcftools and getting this error even after installing the required C compilers.

 

configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/cpp/Makefile
config.status: creating src/perl/Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
sanjay@sanjay-Inspiron-1545:~/Desktop/vcftools$ sudo make
make  all-recursive
make[1]: Entering directory `/home/sanjay/Desktop/vcftools'
Making all in src
make[2]: Entering directory `/home/sanjay/Desktop/vcftools/src'
Making all in cpp
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src/cpp'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src/cpp'
Making all in perl
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src/perl'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src/perl'
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src'
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools/src'
make[2]: Entering directory `/home/sanjay/Desktop/vcftools'
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools'
make[1]: Leaving directory `/home/sanjay/Desktop/vcftools'
sanjay@sanjay-Inspiron-1545:~/Desktop/vcftools$ sudo make install
Making install in src
make[1]: Entering directory `/home/sanjay/Desktop/vcftools/src'
Making install in cpp
make[2]: Entering directory `/home/sanjay/Desktop/vcftools/src/cpp'
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src/cpp'
 /bin/mkdir -p '/usr/local/bin'
  /usr/bin/install -c vcftools '/usr/local/bin'
 /bin/mkdir -p '/usr/local/share/man/man1'
 /usr/bin/install -c -m 644 vcftools.1 '/usr/local/share/man/man1'
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src/cpp'
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools/src/cpp'
Making install in perl
make[2]: Entering directory `/home/sanjay/Desktop/vcftools/src/perl'
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src/perl'
 /bin/mkdir -p '/usr/local/bin'
 /usr/bin/install -c fill-aa fill-an-ac fill-fs fill-ref-md5 vcf-annotate vcf-compare vcf-concat vcf-consensus vcf-contrast vcf-convert vcf-fix-newlines vcf-fix-ploidy vcf-indel-stats vcf-isec vcf-merge vcf-phased-join vcf-query vcf-shuffle-cols vcf-sort vcf-stats vcf-subset vcf-to-tab vcf-tstv vcf-validator '/usr/local/bin'
 /bin/mkdir -p '/usr/local/share/perl/5.18.2'
 /usr/bin/install -c -m 644 FaSlice.pm Vcf.pm VcfStats.pm '/usr/local/share/perl/5.18.2'
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src/perl'
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools/src/perl'
make[2]: Entering directory `/home/sanjay/Desktop/vcftools/src'
make[3]: Entering directory `/home/sanjay/Desktop/vcftools/src'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/home/sanjay/Desktop/vcftools/src'
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools/src'
make[1]: Leaving directory `/home/sanjay/Desktop/vcftools/src'
make[1]: Entering directory `/home/sanjay/Desktop/vcftools'
make[2]: Entering directory `/home/sanjay/Desktop/vcftools'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sanjay/Desktop/vcftools'
make[1]: Leaving directory `/home/sanjay/Desktop/vcftools'

 

please help me to resolve this

error vcftools make makeinstall • 1.5k views
ADD COMMENTlink written 3.2 years ago by sanjay.deshpande50

What is the problem? I don't see anything wrong.

ADD REPLYlink written 3.2 years ago by SES8.1k

As far as I can see, the binaries were installed to /usr/local/bin, which should be on your PATH, so you just have to call them. Did you try something like vcf-merge -h?

ADD REPLYlink written 3.2 years ago by h.mon22k
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: 1232 users visited in the last hour