++ pwd
+ OLD_PWD=/home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011
+++ dirname /home/jb/workspace/flow123d/bin/fterm
++ cd /home/jb/workspace/flow123d/bin/..
++ pwd
+ ABS_FLOW_DIR=/home/jb/workspace/flow123d
+++ pwd
++ realpath --relative-to=/home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 /home/jb/workspace/flow123d
+ REL_FLOW_DIR=../../../../../../flow123d
+ CFG=../../../../../../flow123d/config
+ image_version=dbg
+ image_tag=latest
+ DOCKER_TAG=../../../../../../flow123d/config/docker/image_tag
+ [[ -f ../../../../../../flow123d/config/docker/image_tag ]]
++ cat ../../../../../../flow123d/config/docker/image_tag
+ image_tag=4.0.1
+ [[ -z '' ]]
+ test -t 1
++ id -g
+ gid=1000
++ id -u
+ uid=1000
+ uname=flow
+ autopull=1
+ theme=light
+ DCFG=../../../../../../flow123d/config/docker.cfg
+ [[ -f ../../../../../../flow123d/config/docker.cfg ]]
+ privileged=0
+ verbose=1
+ action=shell
++ get_mount_dir /home/jb/workspace/flow123d
++ [[ -n '' ]]
++ local workdir=/home/jb/workspace/flow123d
++ local workdir_tmp=
++ (( i = 0 ))
++ (( i < 10 ))
+++ dirname /home/jb/workspace/flow123d
++ workdir_tmp=/home/jb/workspace
++ [[ /home/jb/workspace == \/\h\o\m\e\/\j\b ]]
++ workdir=/home/jb/workspace
++ (( i++  ))
++ (( i < 10 ))
+++ dirname /home/jb/workspace
++ workdir_tmp=/home/jb
++ [[ /home/jb == \/\h\o\m\e\/\j\b ]]
++ echo /home/jb/workspace
++ return
+ work=/home/jb/workspace
+ contname=
+ docker_terminal=-it
+ [[ 3 -gt 0 ]]
+ key=--no-term
+ case $key in
+ docker_terminal=
+ shift
+ [[ 2 -gt 0 ]]
+ key=run
+ case $key in
+ action=run
+ shift
+ rest=/home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml
+ break
+ image_kind=dbg
+ image_env=dbg
+ '[' dbg = dbg ']'
+ image_env=gnu
+ '[' -z '' ']'
+ flow123d_images='flow-dev-gnu-dbg flow-dev-gnu-rel'
+ base_image=flow123d/flow-dev-gnu-dbg:4.0.1
+ dbg 'base_image     = flow123d/flow-dev-gnu-dbg:4.0.1'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] base_image     = flow123d/flow-dev-gnu-dbg:4.0.1'
+ dbg 'image_tag      = 4.0.1'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] image_tag      = 4.0.1'
+ dbg 'image_kind     = dbg'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] image_kind     = dbg'
+ dbg 'image_env      = gnu'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] image_env      = gnu'
+ dbg 'action         = run'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] action         = run'
+ dbg 'mount dirs     - /home/jb/workspace'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] mount dirs     - /home/jb/workspace'
+ dbg '               - /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG]                - /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011'
+ dbg 'user           = flow(1000:1000)'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] user           = flow(1000:1000)'
+ dbg 'theme          = light'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] theme          = light'
+ dbg 'autopull       = 1'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] autopull       = 1'
+ dbg 'privileged     = 0'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] privileged     = 0'
+ envarg='-euid=1000 -egid=1000 -etheme=light -ewho=flow -ehome=/mnt//home/jb -v //home/jb:/mnt//home/jb'
+ mountargs='-w //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011://home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace://home/jb/workspace'
+ [[ 0 == \1 ]]
+ case $action in
+ update_image flow123d/flow-dev-gnu-dbg:4.0.1 1
+ pull_image=flow123d/flow-dev-gnu-dbg:4.0.1
+ autopull=1
+ [[ 1 == \1 ]]
+ docker pull flow123d/flow123d/flow-dev-gnu-dbg:4.0.1:4.0.1
invalid reference format
+ dbg2 'Executing flow123d with args /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml'
+ [[ 1 -eq 1 ]]
+ echo -e '[DBG] Executing flow123d with args /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml'
+ dbgc docker run --rm -euid=1000 -egid=1000 -etheme=light -ewho=flow -ehome=/mnt//home/jb -v //home/jb:/mnt//home/jb -w //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011://home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace://home/jb/workspace flow123d/flow-dev-gnu-dbg:4.0.1 ../../../../../../flow123d/bin/flow123d /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml
+ [[ 1 -eq 1 ]]
+ echo -e '[RUN] docker' run --rm -euid=1000 -egid=1000 -etheme=light -ewho=flow -ehome=/mnt//home/jb -v //home/jb:/mnt//home/jb -w //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011://home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace://home/jb/workspace flow123d/flow-dev-gnu-dbg:4.0.1 ../../../../../../flow123d/bin/flow123d /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml
+ docker run --rm -euid=1000 -egid=1000 -etheme=light -ewho=flow -ehome=/mnt//home/jb -v //home/jb:/mnt//home/jb -w //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011://home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011 -v //home/jb/workspace://home/jb/workspace flow123d/flow-dev-gnu-dbg:4.0.1 ../../../../../../flow123d/bin/flow123d /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/transport_fullscale.yaml
00:00:00.193      WARNING.Unprocessed key 'n_schurs' in Record '/problem/flow_equation'.
00:00:00.194      WARNING.Unprocessed key 'time' in Record '/problem/solute_equation/output_stream/times/5'.
00:00:00.195      WARNING.Remaining token 'time', file '/home/jb/workspace/Endorse/tests/test_data/conc_flux_UOS_kg_y.csv', line 1 after token #0
00:00:00.200      WARNING.Input file with version: '3.1.0' is no compatible with the program version: '4.0.0a' 
00:00:02.110      WARNING.Renaming output file: /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/output/flow_fields to /home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/output/flow_fields.pvd
00:00:04.498      WARNING.In file '/home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/input_fields.msh2', '$ElementData' section for field 'cross_section', time: 0.
                  Different number of entities: 128644, computation needs 110182.
00:00:04.827      WARNING.In file '/home/jb/workspace/Endorse/tests/sandbox/noedz_pos02/output/L00_S0000011/input_fields.msh2', '$ElementData' section for field 'conductivity', time: 0.
                  Different number of entities: 128644, computation needs 110182.
00:00:29.584 [0]  ERROR.--------------------------------------------------------
                  Program Error: [ Signal 11 (Segmentation fault) received! ]
                  
                  ** Diagnosting info **
                  /home/jb/workspace/flow123d/src/system/application_base.cc(63): Throw in function PetscErrorCode petsc_signal_handler(int, void*)
                  Dynamic exception type: boost::wrapexcept<ExcSignal>
                  [EI_Signal_TAG*] = 11
                  [EI_SignalName_TAG*] = Segmentation fault
                  
                  ** Stacktrace **
                  
                  --------------------------------------------------------
+ exit 1