Script to fix idr0016 broken symlinks

idr0016_screens.txt

/data/OMERO/ManagedRepository/demo_2/2017-08/14/10-23-19.875/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24277.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/10-59-37.469/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24280.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/13-40-38.086/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24294.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/15-17-49.614/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24295.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/16-51-36.693/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24296.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/18-30-38.408/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24300.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/20-13-38.290/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24301.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/21-54-49.532/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24302.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/14/23-35-41.375/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24303.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/01-18-47.621/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24305.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/03-04-20.799/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24306.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/04-44-41.419/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24308.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/06-24-28.886/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24309.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/08-03-48.599/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24310.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/09-40-48.295/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24311.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/11-17-10.728/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24312.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/12-54-13.214/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24313.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/14-31-01.465/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24320.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/16-08-14.568/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24321.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/17-51-05.598/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24357.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/19-33-14.566/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24508.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/21-15-28.379/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24509.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/15/22-58-32.446/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24514.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/00-42-19.493/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24515.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/02-26-49.136/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24516.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/04-06-53.711/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24517.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/05-45-12.026/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24518.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/07-23-26.287/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24523.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/09-00-48.530/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24525.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/10-37-54.116/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24591.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/12-15-38.227/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24635.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/13-53-07.771/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24636.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/16/22-43-57.175/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24637.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/00-27-40.054/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24638.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/02-13-40.469/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24639.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/03-53-02.263/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24640.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/05-31-33.277/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24643.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/07-10-40.191/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24644.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/08-48-58.341/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24645.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/10-27-07.327/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24646.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/12-04-30.788/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24647.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/13-42-30.152/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24648.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/15-20-20.773/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24651.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/16-57-19.450/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24652.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/18-42-51.300/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24654.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/20-27-48.956/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24655.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/22-13-09.460/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24656.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/17/23-56-24.980/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24657.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/01-40-48.517/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24661.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/03-25-14.571/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24663.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/05-02-05.959/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24666.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/06-41-20.633/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24667.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/08-20-22.838/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24683.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/09-57-56.995/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24684.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/11-37-16.632/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24685.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/13-14-30.753/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24687.screen
/data/OMERO/ManagedRepository/demo_2/2017-08/18/14-52-01.098/tmp/idr-metadata/idr0016-wawer-bioactivecompoundprofiling/screens/24688.screen

update_symlinks.sh

#! /bin/bash

while IFS= read line
do
    echo "sudo rm -f $line"
    sudo rm -f $line
    echo "sudo -u omero-server ln -s /uod/idr/metadata/idr0016-wawer-bioactivecompoundprofiling/screenA/../screens/${line##*/} $line"
    sudo -u omero-server ln -s /uod/idr/metadata/idr0016-wawer-bioactivecompoundprofiling/screenA/../screens/${line##*/} $line
done < "idr0016_screens.txt"