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Circumvent dask heartbeat error #127

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Circumvent dask heartbeat error #127

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8713c97
adding config line for each dask use that should prevent heartbeat error
JanStreffing Jul 24, 2024
3e4d4a8
missed one
JanStreffing Jul 24, 2024
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4 changes: 3 additions & 1 deletion templates_notebooks/template_2dmesh.ipynb
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Expand Up @@ -162,6 +162,8 @@
" from dask.distributed import Client\n",
" # from dask.diagnostics import ProgressBar\n",
" import dask\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down Expand Up @@ -291,7 +293,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.19"
"version": "3.9.19"
}
},
"nbformat": 4,
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4 changes: 3 additions & 1 deletion templates_notebooks/template_hmesh.ipynb
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Expand Up @@ -177,6 +177,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down Expand Up @@ -359,7 +361,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.19"
"version": "3.9.19"
},
"latex_envs": {
"LaTeX_envs_menu_present": true,
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2 changes: 2 additions & 0 deletions templates_notebooks/template_hovm.ipynb
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Expand Up @@ -175,6 +175,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_hovm_clim.ipynb
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Expand Up @@ -173,6 +173,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_hquiver.ipynb
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Expand Up @@ -185,6 +185,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down
6 changes: 2 additions & 4 deletions templates_notebooks/template_hslice.ipynb
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Expand Up @@ -177,10 +177,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" \n",
"# # disable dask worker heartbeat --> prevent error ?\n",
"# from dask import config as cfg\n",
"# cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" \n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_hslice_clim.ipynb
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Expand Up @@ -159,6 +159,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_hslice_isotdep.ipynb
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Expand Up @@ -179,6 +179,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_transect.ipynb
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Expand Up @@ -170,6 +170,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transect_clim.ipynb
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Expand Up @@ -168,6 +168,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transect_transp.ipynb
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Expand Up @@ -173,6 +173,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
12 changes: 11 additions & 1 deletion templates_notebooks/template_transect_transp_t.ipynb
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Expand Up @@ -5,11 +5,19 @@
"execution_count": 1,
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"/work/ab0246/a270092/software/tripyview/tripyview/sub_data.py:8: UserWarning: The seawater library is deprecated! Please use gsw instead.\n",
" import seawater as sw\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"/albedo/home/pscholz/tripyview\n"
"/work/ab0246/a270092/software/tripyview\n"
]
}
],
Expand Down Expand Up @@ -194,6 +202,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transect_zmean.ipynb
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Expand Up @@ -176,6 +176,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transect_zmean_clim.ipynb
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Expand Up @@ -176,6 +176,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_dmoc.ipynb
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Expand Up @@ -187,6 +187,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_dmoc_srfcbflx.ipynb
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Expand Up @@ -178,6 +178,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_dmoc_t.ipynb
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Expand Up @@ -194,6 +194,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_dmoc_wdiap.ipynb
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Expand Up @@ -169,6 +169,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" client = Client(n_workers=parallel_nprc, threads_per_worker=1, memory_limit='{:3.3f} GB'.format(parallel_tmem/parallel_nprc))\n",
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_ghflx.ipynb
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Expand Up @@ -172,6 +172,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_hbstreamf.ipynb
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Expand Up @@ -168,6 +168,8 @@
"source": [
"if do_parallel:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" # from dask.diagnostics import ProgressBar\n",
" import dask\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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4 changes: 3 additions & 1 deletion templates_notebooks/template_transp_mhflx.ipynb
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Expand Up @@ -197,6 +197,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down Expand Up @@ -614,7 +616,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.19"
"version": "3.9.19"
},
"latex_envs": {
"LaTeX_envs_menu_present": true,
Expand Down
4 changes: 3 additions & 1 deletion templates_notebooks/template_transp_zhflx.ipynb
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Expand Up @@ -193,6 +193,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down Expand Up @@ -646,7 +648,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.8.19"
"version": "3.9.19"
},
"latex_envs": {
"LaTeX_envs_menu_present": true,
Expand Down
2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_zmoc.ipynb
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Expand Up @@ -178,6 +178,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_transp_zmoc_t.ipynb
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Expand Up @@ -173,6 +173,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_var_t.ipynb
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Expand Up @@ -185,6 +185,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_vprofile.ipynb
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Expand Up @@ -183,6 +183,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
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2 changes: 2 additions & 0 deletions templates_notebooks/template_vprofile_clim.ipynb
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Expand Up @@ -183,6 +183,8 @@
"# start parallel dask client\n",
"if do_parallel and not client_runs:\n",
" from dask.distributed import Client\n",
" from dask import config as cfg\n",
" cfg.set({'distributed.scheduler.worker-ttl': None})\n",
" ##import dask\n",
" ## dask.config.config.get('distributed').get('dashboard').update({'link':'{JUPYTERHUB_SERVICE_PREFIX}/proxy/{port}/status'})\n",
" print(' --> memory_limit: {:3.3f} GB'.format(parallel_tmem/(parallel_nprc)))\n",
Expand Down