LBEM-CH / focus

High Throughput Electron Microscopy Image Processing Software
http://www.focus-em.org
GNU General Public License v2.0
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Variable name too long #246

Closed arndtbill1 closed 2 years ago

arndtbill1 commented 2 years ago

Hi Focus Team,

I am running the downloaded 1.1.0 Linux software package and am experiencing two errors during 2D crystal processing.

During "Init Files and Parameters" and "Calculate FFTs" I get a "source: Too many arguments" error. Here are the log files from these scripts 2dx_initialize_files.log 2dx_fftrans.log

I also get a "set: Variable name too long" error during the "Evaluate Lattice" script. 2dx_evaluateLattice.log

Any help would be greatly appreciated!

rdrighetto commented 2 years ago

Dear Bill,

Could you please clarify if you downloaded the nightly build of version 1.1.0? Alternatively, you could try fetching and installing FOCUS from Github to ensure you are running the latest version.

What system (Linux distro) are you running Focus on? The "source: Too many arguments" and "set: Variable name too long" errors suggest that your system has a version of csh that is not compatible with FOCUS. Please make sure csh is actually tcsh (i.e. csh should just be a link to tcsh), as explained here: https://lbem-focus.epfl.ch/wiki/doku.php?id=1_0:external-tools

Best wishes, Ricardo

-- Ricardo Diogo Righetto

Em qui., 22 de jul. de 2021 às 18:30, arndtbill1 @.***> escreveu:

Hi Focus Team,

I am running the downloaded 1.1.0 Linux software package and am experiencing two errors during 2D crystal processing.

During "Init Files and Parameters" and "Calculate FFTs" I get a "source: Too many arguments" error. Here are the log files from these scripts 2dx_initialize_files.log https://github.com/C-CINA/focus/files/6857699/2dx_initialize_files.log 2dx_fftrans.log https://github.com/C-CINA/focus/files/6857704/2dx_fftrans.log

I also get a "set: Variable name too long" error during the "Evaluate Lattice" script. 2dx_evaluateLattice.log https://github.com/C-CINA/focus/files/6858077/2dx_evaluateLattice.log

Any help would be greatly appreciated!

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arndtbill1 commented 2 years ago

Hi Ricardo,

Thank you for getting back to me!

We are running on Ubuntu 18.04.5 LTS and downloaded focus-1.0.0-stable-Linux(DEB).deb.

We attempted to install FOCUS from Github, but came across errors during the build.

I am running FOCUS in tcsh, but am still encountering these errors.

Here is how our tcsh is set up: ls -otra /usr/bin/tcsh lrwxrwxrwx 1 root 9 Jul 13 15:53 /usr/bin/tcsh -> /bin/tcsh

Here is our tcsh version: tcsh --version tcsh 6.20.00 (Astron) 2016-11-24 (x86_64-unknown-linux) options wide,nls,dl,al,kan,sm,rh,nd,color,filec

Thanks! Bill