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parameter.ctrl not found #13
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Hi Alex,
It seems that you need to specify the full path to the parameter.ctrl for
Lions to find it at this point.
Hth,
Richard
…On Tue, 22 Jan 2019, 18:00 Alex Nesta ***@***.*** wrote:
Hi, this is a silly issue, but I've hit a roadblock.
I did a fresh git clone of LIONS within the hour 9:50 EST Jan 22, 2018.
I am running it on my institution's cluster.
I modified input.list, parameter.ctrl, and system.sysctrl appropriately.
Then I wen to run bash lions.sh from my root LIONS directory.
I get the following error:
------ Run LIONS self-check procedures ------
Initialize/initializeScripts.sh found.
... checking scripts
Check that LIONS scripts exist and are read/executable
... /projects/beck-lab/alex/bin/LIONS/controls/input.list found.
./controls/parameter.ctrl not found (empty or non-readable).
===== ERROR 2: MISSING REQUISITE FILE =====
here is what the file structure looks like:
***@***.*** LIONS]$ pwd
/projects/beck-lab/alex/bin/LIONS
***@***.*** LIONS]$ ls -lha controls/
total 368K
drwxr-sr-x 5 nestaa beck-lab 363 Jan 22 09:24 .
drwxr-sr-x 11 nestaa beck-lab 424 Jan 22 09:28 ..
-rwxr-xr-x 1 nestaa beck-lab 1.6K Jan 22 09:24 docker.sysctrl
-rwxr-xr-x 1 nestaa beck-lab 6.7K Jan 22 09:24 docker_test.ctrl
-rwxr-xr-x 1 nestaa beck-lab 1.6K Jan 22 09:24 glitch.sysctrl
drwxr-sr-x 2 nestaa beck-lab 600 Jan 22 09:24 inactive
-rw-r--r-- 1 nestaa beck-lab 496 Jan 22 09:29 input.list
drwxr-sr-x 2 nestaa beck-lab 302 Jan 22 09:24 old
-rwxr-xr-x 1 nestaa beck-lab 7.0K Jan 22 09:40 parameter.ctrl
-rwxr-xr-x 1 nestaa beck-lab 6.7K Jan 22 09:24 sandbox.ctrl
-rwxr-xr-x 1 nestaa beck-lab 6.7K Jan 22 09:24 synTALL_test.ctrl
-rw-r--r-- 1 nestaa beck-lab 84 Jan 22 09:24 synTALL_test.list
-rwxr-xr-x 1 nestaa beck-lab 1.7K Jan 22 09:29 system.sysctrl
drwxr-sr-x 2 nestaa beck-lab 92 Jan 22 09:24 template
parameter.ctrl is definitely there and readable. I'm at a loss here.
Thanks for the help,
Alex
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This works. Strange that all of the other files are found without issue using relative path. |
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Hi, this is a silly issue, but I've hit a roadblock.
I did a fresh git clone of LIONS within the hour 9:50 EST Jan 22, 2018.
I am running it on my institution's cluster.
I modified input.list, parameter.ctrl, and system.sysctrl appropriately.
Then I ran bash lions.sh from my root LIONS directory.
I have also tried specifying parameters with
I get the following error:
here is what the file structure looks like:
parameter.ctrl is definitely there and readable. I'm at a loss here.
Thanks for the help,
Alex
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