Recently I have installed a program called “paradigm”. In the program path (/home/hora/Paradigm/) there is a directory “testdata” (/home/hora/Paradigm/testdata) which includes a shell script that runs an example test of the application.The first time I installed the program I was able to run the shell script(runtests.sh) but now that I try to run it I get the error of ” No such file or directory”, although the files which is mentioned by the error are there. I am sure the problem is due to lack of my knowledge to linux and your help will be appreciated. To show the situation:
hora@serv:~/Paradigm/testdata$ ./runtests.sh Testing node splitting [1/2], should take seconds diff: needs_split_1.out: No such file or directory ./runtests.sh: line 6: ../pathwaytab2daifg: No such file or directory
But if I list the content of directory the mentioned files are there:
hora@serv:~/Paradigm/testdata$ ls complex_family_pathway.tab needs_split_1.cfg needs_split_2.out runtests.sh small_disconnected_pathway.tab complex_family_pathway.tab.out needs_split_1.out needs_split_2.pathway.tab
And then:
hora@serv:~/Paradigm$ ls common.h configuration.o evidencesource.o helperScripts makefile pathwaytab2daifg.cpp pathwaytab.h test1 configuration.cpp evidencesource.cpp externVars.cpp main.cpp paradigm pathwaytab2daifg.o pathwaytab.o testdata configuration.h evidencesource.h externVars.o main.o pathwaytab2daifg pathwaytab.cpp README.mediawiki
This is the script content(the problematic part):
#!/bin/bash set -o pipefail cd echo Testing node splitting [1/2], should take seconds ../pathwaytab2daifg needs_split_1.pathway.tab needs_split_1.cfg | diff needs_split_1.out - || exit 1
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Answer
I believe the authors of this script want you to set HOME
to ~/Paradigm
, or they expect you to install directly in your HOME directory (~
) rather than in ~/Paradigm
. Either way, this is an error on their part. A simple fix may be to move the installation to ~
, or try:
env HOME=$(pwd) ./runtests.sh
(Note that the env
is not necessary unless you are running a csh
family shell such as csh
or tcsh
). Setting HOME
changes the behavior of cd
when called with no arguments and makes the value of HOME the target directory.