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Fix MOM jenkins tests #330

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merged 29 commits into from
Sep 23, 2020
Merged

Fix MOM jenkins tests #330

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33ec6de
Made optimisation report options optional
aidanheerdegen Sep 14, 2020
a15f1ed
Made test imports relative for python3 compatibility
aidanheerdegen Sep 15, 2020
f309106
Changed to relative imports in model_test_setup.py
aidanheerdegen Sep 15, 2020
b94ab4a
Update data sources for new gadi naming scheme
aidanheerdegen Sep 15, 2020
bda3cea
Went back to previous import method.
aidanheerdegen Sep 15, 2020
4649132
Add v45 to storage flags so tests will run on gadi
aidanheerdegen Sep 15, 2020
29b1e07
Reverted to previous import method after deleting __init__.py
aidanheerdegen Sep 15, 2020
de01301
Inline platform variables to get around stupid import error
aidanheerdegen Sep 16, 2020
22a67ad
Made build_template global
aidanheerdegen Sep 16, 2020
f90a888
Change back to xCORW-AVX2 for speed
aidanheerdegen Sep 18, 2020
795bfd6
Add dedicated script to qsub to run tests
aidanheerdegen Sep 21, 2020
dff4aec
Added PBS options to script
aidanheerdegen Sep 21, 2020
03ca467
Added storage flag to PBS script
aidanheerdegen Sep 21, 2020
774ed9c
Remove pdb statement
aidanheerdegen Sep 21, 2020
68bffbb
Encode strings when writing stdout and stderr
aidanheerdegen Sep 21, 2020
076a2fd
Make check_output return text
aidanheerdegen Sep 21, 2020
f8868e5
Revert to print simple strings to stdout/stderr
aidanheerdegen Sep 21, 2020
f7b4f9a
Open output files as text
aidanheerdegen Sep 21, 2020
bb104e9
Change to default encoding. Move stdout/stderr write outside else clause
aidanheerdegen Sep 22, 2020
c2647f2
Fixed os.close error
aidanheerdegen Sep 22, 2020
eaa86d1
Changed python3 incompatible has_key to in
aidanheerdegen Sep 22, 2020
8c89072
Updated om3_core3 checksums
aidanheerdegen Sep 22, 2020
b98ff86
Added back following tests: atlantic1, ESM2M_pi-control_C2 and global…
aidanheerdegen Sep 22, 2020
a381273
Added some print statements to debug data downloading
aidanheerdegen Sep 22, 2020
c1386dc
Updated ESM2M_pi-control_C2.input.tar.gz path
aidanheerdegen Sep 22, 2020
d9d8926
Added another info/debug statement for downloading data
aidanheerdegen Sep 22, 2020
28e73aa
Got rid of the two problematic experiments
aidanheerdegen Sep 22, 2020
e403f52
Updated checksums for global_0.25_degree_NYF
aidanheerdegen Sep 23, 2020
62794b3
Added Jenkins run and reproducibility test badges to README
aidanheerdegen Sep 23, 2020
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5 changes: 4 additions & 1 deletion README.md
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Original file line number Diff line number Diff line change
@@ -1,4 +1,7 @@
[![Build Status](https://travis-ci.org/mom-ocean/MOM5.svg?branch=master)](https://travis-ci.org/mom-ocean/MOM5)
| Compile | Model run (fast) | Bit Repro (fast) |
|:-------:|:--------:|:--------:|:--------:|
| [![Build Status](https://travis-ci.org/mom-ocean/MOM5.svg?branch=master)](https://travis-ci.org/mom-ocean/MOM5) | [![Fast model run](https://accessdev.nci.org.au/jenkins/buildStatus/icon?job=mom-ocean.org/MOM5_run)](https://accessdev.nci.org.au/jenkins/buildStatus/icon?job=mom-ocean.org/MOM5_run) | [![Bit Reproducibility](https://accessdev.nci.org.au/jenkins/buildStatus/icon?job=mom-ocean.org/MOM5_bit_reproducibility)](https://accessdev.nci.org.au/jenkins/buildStatus/icon?job=mom-ocean.org/MOM5_bit_reproducibility) |


# The Modular Ocean Model

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13 changes: 10 additions & 3 deletions bin/mkmf.template.nci
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Expand Up @@ -20,7 +20,7 @@ CC := mpicc
VERBOSE :=
OPT := on

MAKEFLAGS += --jobs=4
MAKEFLAGS += -j

INCLUDE := -I$(NETCDF_ROOT)/include

Expand All @@ -38,13 +38,15 @@ endif

FPPFLAGS := -fpp -Wp,-w $(INCLUDE)
FFLAGS := -fno-alias -safe-cray-ptr -fpe0 -ftz -assume byterecl -i4 -r8 -traceback -nowarn -check noarg_temp_created -assume nobuffered_io -convert big_endian -grecord-gcc-switches -align all
FFLAGS_OPT := -g3 -O2 -axCORE-AVX2 -debug all -check none -qopt-report=5 -qopt-report-annotate
FFLAGS_OPT := -g3 -O2 -xCORE-AVX2 -debug all -check none
FFLAGS_REPORT := -qopt-report=5 -qopt-report-annotate
FFLAGS_DEBUG := -g3 -O0 -debug all -check -check noarg_temp_created -check nopointer -warn -warn noerrors -ftrapuv
FFLAGS_REPRO := -fp-model precise -fp-model source -align all
FFLAGS_VERBOSE := -v -V -what

CFLAGS := -D__IFC $(INCLUDE)
CFLAGS_OPT := -O2 -debug minimal -axCORE-AVX2 -qopt-report=5 -qopt-report-annotate
CFLAGS_OPT := -O2 -debug minimal -xCORE-AVX2
CFLAGS_REPORT := -qopt-report=5 -qopt-report-annotate
CFLAGS_DEBUG := -O0 -g -ftrapuv -traceback
CFLAGS_REPRO := -fp-model precise -fp-model source

Expand All @@ -70,6 +72,11 @@ FFLAGS += $(FFLAGS_VERBOSE)
LDFLAGS += $(LDFLAGS_VERBOSE)
endif

ifneq ($(REPORT),)
CFLAGS += $(CFLAGS_REPORT)
FFLAGS += $(FFLAGS_REPORT)
endif

LIBS := -L$(NETCDF_ROOT)/lib -lnetcdf -lnetcdff \

ifneq ($(OASIS_ROOT),)
Expand Down
72 changes: 36 additions & 36 deletions data/data_sources.csv
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Open in desktop
Original file line number Diff line number Diff line change
@@ -1,36 +1,36 @@
CM2.1p1.input.tar.gz, /g/data1/ua8/mom/test_data/CM2.1p1.input.tar.gz, file:///g/data1/ua8/mom/test_data/CM2.1p1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2.1p1.input.tar.gz
CM2.1p1.output.tar.gz, /g/data1/ua8/mom/test_data/CM2.1p1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2.1p1.output.tar.gz
CM2M_coarse_BLING.input.tar.gz, /g/data1/ua8/mom/test_data/CM2M_coarse_BLING.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2M_coarse_BLING.input.tar.gz
CM2M_coarse_BLING.output.tar.gz, /g/data1/ua8/mom/test_data/CM2M_coarse_BLING.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2M_coarse_BLING.output.tar.gz
ESM2M_pi-control_C2.input.tar.gz, /g/data1/ua8/mom/test_data/4dc08e007b6920911634f766da7d36c6--ESM2M_pi-control_C2.input.tar.gz, https://s3-us-west-2.amazonaws.com/mom5/4dc08e007b6920911634f766da7d36c6--ESM2M_pi-control_C2.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/4dc08e007b6920911634f766da7d36c6--ESM2M_pi-control_C2.input.tar.gz
ICCMp1.input.tar.gz, /g/data1/ua8/mom/test_data/ICCMp1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/ICCMp1.input.tar.gz
MOM5_SIS_COBALT.input.tar.gz, /g/data1/ua8/mom/test_data/MOM5_SIS_COBALT.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM5_SIS_COBALT.input.tar.gz
MOM_SIS_BLING.input.tar.gz, /g/data1/ua8/mom/test_data/MOM_SIS_BLING.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_BLING.input.tar.gz
MOM_SIS_BLING.output.tar.gz, /g/data1/ua8/mom/test_data/MOM_SIS_BLING.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_BLING.output.tar.gz
MOM_SIS_TOPAZ.input.tar.gz, /g/data1/ua8/mom/test_data/MOM_SIS_TOPAZ.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_TOPAZ.input.tar.gz
atlantic1.input.tar.gz, /g/data1/ua8/mom/test_data/atlantic1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/atlantic1.input.tar.gz
baltic1.input.tar.gz, /g/data1/ua8/mom/test_data/baltic1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/baltic1.input.tar.gz
baltic1_withMask.input.tar.gz, /g/data1/ua8/mom/test_data/baltic1_withMask.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/baltic1_withMask.input.tar.gz
bowl1.input.tar.gz, /g/data1/ua8/mom/test_data/bowl1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/bowl1.input.tar.gz
bowl1.output.tar.gz, /g/data1/ua8/mom/test_data/bowl1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/bowl1.output.tar.gz
box1.input.tar.gz, /g/data1/ua8/mom/test_data/box1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box1.input.tar.gz
box1.output.tar.gz, /g/data1/ua8/mom/test_data/box1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box1.output.tar.gz
box_channel1.input.tar.gz, /g/data1/ua8/mom/test_data/box_channel1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box_channel1.input.tar.gz
box_channel1.output.tar.gz, /g/data1/ua8/mom/test_data/box_channel1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box_channel1.output.tar.gz
dome1.input.tar.gz, /g/data1/ua8/mom/test_data/dome1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome1.input.tar.gz
dome1.output.tar.gz, /g/data1/ua8/mom/test_data/dome1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome1.output.tar.gz
dome_bates_blobs_mosaics.input.tar.gz, /g/data1/ua8/mom/test_data/dome_bates_blobs_mosaics.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome_bates_blobs_mosaics.input.tar.gz
global_0.25_degree_NYF.input.tar.gz, /g/data1/ua8/mom/test_data/global_0.25_degree_NYF.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/global_0.25_degree_NYF.input.tar.gz
gyre1.input.tar.gz, /g/data1/ua8/mom/test_data/gyre1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/gyre1.input.tar.gz
gyre1.output.tar.gz, /g/data1/ua8/mom/test_data/gyre1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/gyre1.output.tar.gz
iom1.input.tar.gz, /g/data1/ua8/mom/test_data/iom1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/iom1.input.tar.gz
iom1.output.tar.gz, /g/data1/ua8/mom/test_data/iom1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/iom1.output.tar.gz
mk3p51.input.tar.gz, /g/data1/ua8/mom/test_data/mk3p51.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/mk3p51.input.tar.gz
mk3p51.output.tar.gz, /g/data1/ua8/mom/test_data/mk3p51.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/mk3p51.output.tar.gz
mom4p1_ebm1.input.tar.gz, /g/data1/ua8/mom/test_data/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.input.tar.gz, https://s3-us-west-2.amazonaws.com/mom5/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.tar.gz
om3_core1.input.tar.gz, /g/data1/ua8/mom/test_data/om3_core1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/om3_core1.input.tar.gz
om3_core3.input.tar.gz, /g/data1/ua8/mom/test_data/om3_core3.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/om3_core3.input.tar.gz
symmetric_box1.input.tar.gz, /g/data1/ua8/mom/test_data/symmetric_box1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/symmetric_box1.input.tar.gz
symmetric_box1.output.tar.gz, /g/data1/ua8/mom/test_data/symmetric_box1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/symmetric_box1.output.tar.gz
torus1.input.tar.gz, /g/data1/ua8/mom/test_data/torus1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/torus1.input.tar.gz
torus1.output.tar.gz, /g/data1/ua8/mom/test_data/torus1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/torus1.output.tar.gz
CM2.1p1.input.tar.gz, /g/data/ua8/mom/test_data/CM2.1p1.input.tar.gz, file:///g/data1/ua8/mom/test_data/CM2.1p1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2.1p1.input.tar.gz
CM2.1p1.output.tar.gz, /g/data/ua8/mom/test_data/CM2.1p1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2.1p1.output.tar.gz
CM2M_coarse_BLING.input.tar.gz, /g/data/ua8/mom/test_data/CM2M_coarse_BLING.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2M_coarse_BLING.input.tar.gz
CM2M_coarse_BLING.output.tar.gz, /g/data/ua8/mom/test_data/CM2M_coarse_BLING.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/CM2M_coarse_BLING.output.tar.gz
ESM2M_pi-control_C2.input.tar.gz, /g/data/ua8/mom/test_data/ESM2M_pi-control_C2.input.tar.gz, https://s3-us-west-2.amazonaws.com/mom5/4dc08e007b6920911634f766da7d36c6--ESM2M_pi-control_C2.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/4dc08e007b6920911634f766da7d36c6--ESM2M_pi-control_C2.input.tar.gz
ICCMp1.input.tar.gz, /g/data/ua8/mom/test_data/ICCMp1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/ICCMp1.input.tar.gz
MOM5_SIS_COBALT.input.tar.gz, /g/data/ua8/mom/test_data/MOM5_SIS_COBALT.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM5_SIS_COBALT.input.tar.gz
MOM_SIS_BLING.input.tar.gz, /g/data/ua8/mom/test_data/MOM_SIS_BLING.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_BLING.input.tar.gz
MOM_SIS_BLING.output.tar.gz, /g/data/ua8/mom/test_data/MOM_SIS_BLING.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_BLING.output.tar.gz
MOM_SIS_TOPAZ.input.tar.gz, /g/data/ua8/mom/test_data/MOM_SIS_TOPAZ.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/MOM_SIS_TOPAZ.input.tar.gz
atlantic1.input.tar.gz, /g/data/ua8/mom/test_data/atlantic1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/atlantic1.input.tar.gz
baltic1.input.tar.gz, /g/data/ua8/mom/test_data/baltic1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/baltic1.input.tar.gz
baltic1_withMask.input.tar.gz, /g/data/ua8/mom/test_data/baltic1_withMask.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/baltic1_withMask.input.tar.gz
bowl1.input.tar.gz, /g/data/ua8/mom/test_data/bowl1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/bowl1.input.tar.gz
bowl1.output.tar.gz, /g/data/ua8/mom/test_data/bowl1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/bowl1.output.tar.gz
box1.input.tar.gz, /g/data/ua8/mom/test_data/box1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box1.input.tar.gz
box1.output.tar.gz, /g/data/ua8/mom/test_data/box1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box1.output.tar.gz
box_channel1.input.tar.gz, /g/data/ua8/mom/test_data/box_channel1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box_channel1.input.tar.gz
box_channel1.output.tar.gz, /g/data/ua8/mom/test_data/box_channel1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/box_channel1.output.tar.gz
dome1.input.tar.gz, /g/data/ua8/mom/test_data/dome1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome1.input.tar.gz
dome1.output.tar.gz, /g/data/ua8/mom/test_data/dome1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome1.output.tar.gz
dome_bates_blobs_mosaics.input.tar.gz, /g/data/ua8/mom/test_data/dome_bates_blobs_mosaics.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/dome_bates_blobs_mosaics.input.tar.gz
global_0.25_degree_NYF.input.tar.gz, /g/data/ua8/mom/test_data/global_0.25_degree_NYF.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/global_0.25_degree_NYF.input.tar.gz
gyre1.input.tar.gz, /g/data/ua8/mom/test_data/gyre1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/gyre1.input.tar.gz
gyre1.output.tar.gz, /g/data/ua8/mom/test_data/gyre1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/gyre1.output.tar.gz
iom1.input.tar.gz, /g/data/ua8/mom/test_data/iom1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/iom1.input.tar.gz
iom1.output.tar.gz, /g/data/ua8/mom/test_data/iom1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/iom1.output.tar.gz
mk3p51.input.tar.gz, /g/data/ua8/mom/test_data/mk3p51.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/mk3p51.input.tar.gz
mk3p51.output.tar.gz, /g/data/ua8/mom/test_data/mk3p51.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/mk3p51.output.tar.gz
mom4p1_ebm1.input.tar.gz, /g/data/ua8/mom/test_data/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.input.tar.gz, https://s3-us-west-2.amazonaws.com/mom5/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/521e418ac4988e8a424903ed4d219339--mom4p1_ebm1.tar.gz
om3_core1.input.tar.gz, /g/data/ua8/mom/test_data/om3_core1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/om3_core1.input.tar.gz
om3_core3.input.tar.gz, /g/data/ua8/mom/test_data/om3_core3.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/om3_core3.input.tar.gz
symmetric_box1.input.tar.gz, /g/data/ua8/mom/test_data/symmetric_box1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/symmetric_box1.input.tar.gz
symmetric_box1.output.tar.gz, /g/data/ua8/mom/test_data/symmetric_box1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/symmetric_box1.output.tar.gz
torus1.input.tar.gz, /g/data/ua8/mom/test_data/torus1.input.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/torus1.input.tar.gz
torus1.output.tar.gz, /g/data/ua8/mom/test_data/torus1.output.tar.gz, http://portal.sf.utas.edu.au/thredds/fileServer/momtest/test_data/torus1.output.tar.gz
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