[Neurodebian-users] FSL Feat on Ubuntu 16.04 creates huge report_log.html filled with zeros

Tue Dec 6 07:22:20 UTC 2016

Hi,

But report for the neurodebian package: fsl-5.0-core, Version: 5.0.9-3~nd16.04+1
My system:  Ubuntu 16.04.1 LTS amd64 with all current updates.

When I try to run FEAT, the program is writing zeros (the byte 0, not the char "0") at a rate of about 100 MB per second into the file report_log.html until all disk space is filled up. It starts doing so at about 15 seconds after invocation.

The problem occurred with different configurations of Feat (preprocessing, statistic, etc.).

Here is the head of report_log.html until the start of the zeros:

<HTML><HEAD>

<META HTTP-EQUIV=REFRESH CONTENT=5>

<link REL=stylesheet TYPE=text/css href=.files/fsl.css>
<TITLE>FSL</TITLE></HEAD><BODY><OBJECT data=report.html></OBJECT>
<h2>Progress Report / Log</h2>
Started at Fr 25. Nov 10:32:01 CET 2016<p>
Feat main script<br><pre>

/bin/cp /dat/UHR/neu/auswertungen/rs/2001/feat.fsf design.fsf

/usr/share/fsl/5.0/bin/feat_model design

mkdir .files;cp /usr/share/fsl/5.0/doc/fsl.css .files;cp -r /usr/share/fsl/5.0/doc/images .files/images

/usr/share/fsl/5.0/bin/fsl_sub -T 10 -l logs -N feat0_init   /usr/share/fsl/5.0/bin/feat /dat/UHR/neu/auswertungen/rs/2001/rs.feat/design.fsf -D /dat/UHR/neu/auswertungen/rs/2001/rs.feat -I 1 -init
12050

/usr/share/fsl/5.0/bin/fsl_sub -T 360 -l logs -N feat2_pre -j 12050  /usr/share/fsl/5.0/bin/feat /dat/UHR/neu/auswertungen/rs/2001/rs.feat/design.fsf -D /dat/UHR/neu/auswertungen/rs/2001/rs.feat -I 1 -prestats
</pre><hr>Initialisation<br><pre>

/usr/share/fsl/5.0/bin/fslmaths /dat/UHR/neu/auswertungen/rs/2001/2001_rs prefiltered_func_data -odt float
Total original volumes = 180

/usr/share/fsl/5.0/bin/fslroi prefiltered_func_data example_func 90 1
</pre><hr>Preprocessing:Stage 1<br><pre>

/usr/share/fsl/5.0/bin/mainfeatreg -F 6.00 -d /dat/UHR/neu/auswertungen/rs/2001/rs.feat -l /dat/UHR/neu/auswertungen/rs/2001/rs.feat/logs/feat2_pre -R /dat/UHR/neu/auswertungen/rs/2001/rs.feat/report_unwarp.html -r /dat/UHR/neu/auswertungen/rs/2001/rs.feat/report_reg.html  -i /dat/UHR/neu/auswertungen/rs/2001/rs.feat/example_func.nii.gz  -n 10 -h /dat/UHR/neu/auswertungen/rs/2001/2001_T1_brain -w  BBR -x 90 -s /usr/share/fsl/data/standard/MNI152_T1_2mm_brain -y 12 -z 90
Option -F ( FEAT version parameter ) selected with  argument "6.00"
Option -d ( output directory ) selected with  argument "/dat/UHR/neu/auswertungen/rs/2001/rs.feat"
Option -l ( logfile )input with argument "/dat/UHR/neu/auswertungen/rs/2001/rs.feat/logs/feat2_pre"
Option -R ( html unwarping report ) selected with  argument "/dat/UHR/neu/auswertungen/rs/2001/rs.feat/report_unwarp.html"
Option -r ( html registration report ) selected with  argument "/dat/UHR/neu/auswertungen/rs/2001/rs.feat/report_reg.html"
Option -i ( main input ) input with argument "/dat/UHR/neu/auswertungen/rs/2001/rs.feat/example_func.nii.gz"
Option -n ( use nonlinear reg ) input with argument "10"
Option -h ( high-res structural image ) selected with  argument "/dat/UHR/neu/auswertungen/rs/2001/2001_T1_brain"
Option -w ( highres dof ) selected with  argument "BBR"
Option -x ( highres search ) selected with  argument "90"
Option -s ( standard image ) selected with  argument "/usr/share/fsl/data/standard/MNI152_T1_2mm_brain"
Option -y ( standard dof ) selected with  argument "12"
Option -z ( standard search ) selected with  argument "90"
</pre><hr>Registration<br><pre>

/bin/mkdir -p /dat/UHR/neu/auswertungen/rs/2001/rs.feat/reg

Greetings
Peter