Entering edit mode
6.9 years ago
landrjos
▴
20
Hi All,
I am trying to install fasts-tools. I have successfully installed pcre2 and libc but cant install fasts-tools build 8. This is the error I am getting. Can anyone give a suggestion as to what I am doing wrong?
Making install in src
CC common.o
CCLD fastq-grep
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-kmers
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-match
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-uniq
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-qual
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-sample
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-qualadj
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-sort
../libtool: line 7899: func_munge_path_list: command not found
CCLD fastq-qscale
../libtool: line 7899: func_munge_path_list: command not found
.././install-sh -c -d '/usr/local/bin'
/bin/sh ../libtool --mode=install /usr/bin/install -c fastq-grep fastq-kmers fastq-match fastq-uniq fastq-qual fastq-sample fastq-qualadj fastq-sort fastq-qscale '/usr/local/bin'
libtool: install: /usr/bin/install -c fastq-grep /usr/local/bin/fastq-grep
install: /usr/local/bin/fastq-grep: Permission denied
make[2]: *** [install-binPROGRAMS] Error 71
make[1]: *** [install-am] Error 2
make: *** [install-recursive] Error 1
SOMGEGRL01134EM:fastq-tools-0.8 jwlandry2$
Thanks,
Jos
Is this your own computer? Looks like you don't have permissions to install globally.
This is a university computer. What do I need the IT people to do?
You can install locally to your home folder. Check the
README
, or program manual for the software. If there's aconfigure
script, typically one can use--prefix
to provide the install path, prior to runningmake install
. As is a university computer, check with someone first. If it is a lab server, check with the PI or lab assistants.The problem we are having is that the fasts-tools does not come with a readme file. There are no install instructions at all.
Would the install path be in the program folder /Users/jwlandry2/Desktop/Bioinfor.Tools/fastq-tools-0.8?
here are the contents of the fastq-tools folder. AUTHORS TODO config.status doc missing COPYING aclocal.m4 config.sub install-sh src Makefile compile configure libtool test-driver Makefile.am config.guess configure.ac ltmain.sh tests Makefile.in config.log depcomp m4
What would be the commands I would use to do the install? I tried...
SOMGEGRL01134EM:fastq-tools-0.8 jwlandry2$ ./configure && make install
and that gave me the error.
You should not need to strictly
install
them. After you get them compiled, use them from whatever directory they are in by appending it to your$PATH
or copying the executables to a directory already present in your$PATH
. You could also look into the--prefix
method mentioned above.Hi, I'm the I.T. analyst working to help get this installed.
What should we be logged in as exactly? You stated we cannot install globally, but I'm the admin on this machine. By globally, what exactly do you mean? Are you saying we need superuser privileges?
Correct. To install in
/use/local/bin
you would need elevated privileges. If you havesudo
access then for themake install
part you can usesudo make install
. Otherwise you may need to log in asroot
for the make install part.