Hi Katja,
I wonder if this is related to possible security settings. I can’t replicate
this, but can you send your license file so that we can narrow down the
possibilities? You can send it directly to my email, off-list.
Best
Andrew
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Zoner, Katja
<katja.zo...@pennmedicine.upenn.edu>
Date: Monday, March 22, 2021 at 2:40 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] "ERROR: crypt() returned null with 4-line file" when
running via Singularity
External Email - Use Caution
Hi all,
I am trying to run a single subject through FreeSurfer 7.1.1 via Singularity
image (pulled from the FreeSurfer DockerHub) like this:
export SINGULARITYENV_FS_LICENSE=/mnt/22Q/images/license.txt
export SINGULARITYENV_SUBJECTS_DIR=/mnt/22Q/data/freesurfer
singularity exec --cleanenv -B /project/bbl_projects/22Q/:/mnt/22Q \
/project/bbl_projects/22Q/images/freesurfer_7.1.1.sif \
recon-all -s sub-17867 -i
/mnt/22Q/data/bids_directory/sub-17867/ses-22Q1/anat/sub-17867_ses-22Q1_T1w.nii.gz
-all
But it fails quickly with error message:
ERROR: crypt() returned null with 4-line file
Do you know what might be causing this error message? How can I address this?
Additional info:
1. FreeSurfer version: freesurfer-linux-centos6_x86_64-7.1.1-20200723-8b40551
2. uname -a: Linux singularity01 3.10.0-1127.8.2.el7.x86_64 #1 SMP Tue May
12 16:57:42 UTC 2020 x86_64 x86_64 x86_64 GNU/Linux
3. recon-all.log: see attached
See GitHub issue: MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be
https://github.com/freesurfer/freesurfer/issues/848<https://secure-web.cisco.com/1ut10r0i0QuSlDil5z36vyz9khjKfY1Scbdqd9hofmPnzDpnN0bPBmojSGjIHi7yzY-uAiR9TwSegSq34pGGazlC4w7PY2qro7tebqzKCIDwTGzo0b7dGo_5WJsUXpEF8pnoBxLzE5qyK-Ip4LxSG2qYpeYTUe26cjH1b7slOniWz6RSxWjdwFtHm84K-HRyUCV5fxm82SyHP7wdwOdwxAVCjfNMXBfZFnqjbhknEIVYKcFpKgXkTKuzl2SdmuJhOfFiYNxkixGTo_DisMo8Qiw/https%3A%2F%2Fgithub.com%2Ffreesurfer%2Ffreesurfer%2Fissues%2F848>
[https://secure-web.cisco.com/1TDcdfVeSPTzDeg0asgP7Yy7WKhWmvgHB9T_fyDNBmSSR44igxbFcjkvEBwioJUXRaWvFZHtoGPQqrUbSlBypgDgQbDuBWjvd-22zMLp_ozjhIwKQzVLJKCp0yPoqA5Jl_pFvhR-3OKlIQ9D5gOx-1rSy9WaziDl1r-sKmOwEbyWlYPXOi1GYxFF_5VZ3ElEqF1XxMvU2JxTpTowEWPoVTRECmtbmBdJhnEkKiBKV2AlSQcbm-ZEJyL2cL-lSnLuPDlXjKSBdlNZgzeMLSL51ug/https%3A%2F%2Favatars.githubusercontent.com%2Fu%2F6330653%3Fs%3D400%26v%3D4]<https://secure-web.cisco.com/1ut10r0i0QuSlDil5z36vyz9khjKfY1Scbdqd9hofmPnzDpnN0bPBmojSGjIHi7yzY-uAiR9TwSegSq34pGGazlC4w7PY2qro7tebqzKCIDwTGzo0b7dGo_5WJsUXpEF8pnoBxLzE5qyK-Ip4LxSG2qYpeYTUe26cjH1b7slOniWz6RSxWjdwFtHm84K-HRyUCV5fxm82SyHP7wdwOdwxAVCjfNMXBfZFnqjbhknEIVYKcFpKgXkTKuzl2SdmuJhOfFiYNxkixGTo_DisMo8Qiw/https%3A%2F%2Fgithub.com%2Ffreesurfer%2Ffreesurfer%2Fissues%2F848>
`ERROR: crypt() returned null with 4-line file` when running via Singularity
image · Issue #848 ·
freesurfer/freesurfer<https://secure-web.cisco.com/1ut10r0i0QuSlDil5z36vyz9khjKfY1Scbdqd9hofmPnzDpnN0bPBmojSGjIHi7yzY-uAiR9TwSegSq34pGGazlC4w7PY2qro7tebqzKCIDwTGzo0b7dGo_5WJsUXpEF8pnoBxLzE5qyK-Ip4LxSG2qYpeYTUe26cjH1b7slOniWz6RSxWjdwFtHm84K-HRyUCV5fxm82SyHP7wdwOdwxAVCjfNMXBfZFnqjbhknEIVYKcFpKgXkTKuzl2SdmuJhOfFiYNxkixGTo_DisMo8Qiw/https%3A%2F%2Fgithub.com%2Ffreesurfer%2Ffreesurfer%2Fissues%2F848>
I am trying to run a single subject through FreeSurfer 7.1.1 via Singularity
image like this: export SINGULARITYENV_FS_LICENSE=/mnt/22Q/images/license.txt
export SINGULARITYENV_SUBJECTS_DIR=/mnt/22...
github.com
Thank you for any assistance!
Katja Zoner
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