From ad4e786acedb69fab6c3d649874ca223d16bf3d9 Mon Sep 17 00:00:00 2001 From: Cecile Hannay Date: Thu, 1 Aug 2024 17:44:51 -0600 Subject: [PATCH] replace /glade/work/cases by /glade/u/home/cases --- .../basics/cesm_workflow/case_build.ipynb | 10 ++++----- .../basics/cesm_workflow/case_setup.ipynb | 12 +++++----- .../basics/cesm_workflow/case_submit.ipynb | 8 +++---- .../checking_jobs_and_status.ipynb | 2 +- .../basics/cesm_workflow/create_clone.ipynb | 4 ++-- .../basics/cesm_workflow/create_newcase.ipynb | 20 ++++++++--------- .../basics/cesm_workflow/model_output.ipynb | 4 ++-- notebooks/basics/cesm_workspaces.ipynb | 8 +++---- notebooks/basics/code/cesm_code_explore.ipynb | 8 +++---- notebooks/basics/code/git_download_cesm.ipynb | 22 +++++++++---------- notebooks/basics/exercises/extra.ipynb | 4 ++-- notebooks/basics/exercises/first_B1850.ipynb | 10 ++++----- notebooks/basics/exercises/second_B1850.ipynb | 2 +- .../challenge/cam-chem_waccm/exercise_1.ipynb | 2 +- .../challenge/cam-chem_waccm/exercise_2.ipynb | 2 +- .../challenge/cam-chem_waccm/exercise_3.ipynb | 2 +- notebooks/challenge/cam/cam.ipynb | 6 ++--- notebooks/challenge/cam/exercise_1.ipynb | 2 +- notebooks/challenge/cam/exercise_2.ipynb | 2 +- notebooks/challenge/cam/exercise_3.ipynb | 2 +- notebooks/challenge/cam/exercise_4.ipynb | 2 +- notebooks/challenge/cam/exercise_5.ipynb | 2 +- notebooks/challenge/cam/exercise_6.ipynb | 4 ++-- .../challenge/cice/cice_exercise_1.ipynb | 4 ++-- .../challenge/cice/cice_exercise_2.ipynb | 6 ++--- .../challenge/cice/cice_exercise_3.ipynb | 12 +++++----- .../challenge/clm_ctsm/clm_exercise_1.ipynb | 2 +- .../challenge/clm_ctsm/clm_exercise_2.ipynb | 2 +- .../challenge/clm_ctsm/clm_exercise_3.ipynb | 2 +- notebooks/challenge/mom/mom_exercise_5.ipynb | 8 +++---- notebooks/challenge/paleo/exercise_1.ipynb | 2 +- notebooks/challenge/paleo/exercise_2.ipynb | 2 +- notebooks/challenge/paleo/exercise_3.ipynb | 4 ++-- notebooks/challenge/pop/pop_exercise_1.ipynb | 4 ++-- notebooks/challenge/pop/pop_exercise_2.ipynb | 6 ++--- notebooks/challenge/pop/pop_exercise_3.ipynb | 8 +++---- notebooks/challenge/pop/pop_exercise_4.ipynb | 6 ++--- .../diagnostics/additional/uxarray.ipynb | 2 +- notebooks/diagnostics/mom/basics_mom.ipynb | 2 +- .../xml/exercises/xml_length_exercise.ipynb | 10 ++++----- .../xml/exercises/xml_runtype_exercise.ipynb | 6 ++--- .../xml/exercises/xml_timestep_exercise.ipynb | 6 ++--- notebooks/modifications/xml/overview.ipynb | 2 +- .../exercises/exercise_cam_output.ipynb | 2 +- .../exercises/exercise_tuning_parameter.ipynb | 2 +- .../exercises/exercise_add_field.ipynb | 2 +- .../exercises/troubleshooting_cam.ipynb | 2 +- 47 files changed, 122 insertions(+), 122 deletions(-) diff --git a/notebooks/basics/cesm_workflow/case_build.ipynb b/notebooks/basics/cesm_workflow/case_build.ipynb index d733d9f6e..c94ff71a0 100644 --- a/notebooks/basics/cesm_workflow/case_build.ipynb +++ b/notebooks/basics/cesm_workflow/case_build.ipynb @@ -34,8 +34,8 @@ "\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "- `$EXEROOT` =`/glade/derecho/scratch/$USER/$CASE/bld` \n", "- `$RUNDIR` =`/glade/derecho/scratch/$USER/$CASE/run` " ] @@ -63,7 +63,7 @@ "\n", "You should still be in the `CASEROOT` directory after running `case.setup`\n", "```\n", - "cd /glade/work/$USER/cases/CASE\n", + "cd /glade/u/home/$USER/cases/CASE\n", "```\n", " \n", "
\n", @@ -93,7 +93,7 @@ "
\n", " \n", "```\n", - "Building case in directory /glade/work/$USER/cases/b1850.basics\n", + "Building case in directory /glade/u/home/$USER/cases/b1850.basics\n", "sharedlib_only is False\n", "model_only is False\n", "Generating component namelists as part of build\n", @@ -121,7 +121,7 @@ "Creating component namelists\n", "Calling /glade/u/home/$USER/my_cesm_code/components/cam//cime_config/buildnml\n", "...calling cam buildcpp to set build time options\n", - "CAM namelist copy: file1 /glade/work/$USER/cases/b1850.basics/Buildconf/camconf/atm_in file2 /glade/derecho/scratch/$USER/b1850.basics/run/atm_in\n", + "CAM namelist copy: file1 /glade/u/home/$USER/cases/b1850.basics/Buildconf/camconf/atm_in file2 /glade/derecho/scratch/$USER/b1850.basics/run/atm_in\n", "Calling /glade/u/home/$USER/my_cesm_code/components/clm//cime_config/buildnml\n", "Calling /glade/u/home/$USER/my_cesm_code/components/cice//cime_config/buildnml\n", "...buildnml calling cice buildcpp to set build time options\n", diff --git a/notebooks/basics/cesm_workflow/case_setup.ipynb b/notebooks/basics/cesm_workflow/case_setup.ipynb index 937f9b1a1..a1b30af93 100644 --- a/notebooks/basics/cesm_workflow/case_setup.ipynb +++ b/notebooks/basics/cesm_workflow/case_setup.ipynb @@ -30,8 +30,8 @@ "\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "- `$EXEROOT` =`/glade/derecho/scratch/$USER/$CASE/bld` \n", "- `$RUNDIR` =`/glade/derecho/scratch/$USER/$CASE/run` " ] @@ -65,7 +65,7 @@ "\n", "Go to the `$CASEROOT` directory \n", "```\n", - "cd /glade/work/$USER/cases/CASE\n", + "cd /glade/u/home/$USER/cases/CASE\n", "```\n", " \n", "
\n", @@ -95,11 +95,11 @@ "
\n", " \n", "```\n", - "/glade/work/$USER/cases/b1850.basics/env_mach_specific.xml already exists, delete to replace\n", + "/glade/u/home/$USER/cases/b1850.basics/env_mach_specific.xml already exists, delete to replace\n", "job is case.run USER_REQUESTED_WALLTIME None USER_REQUESTED_QUEUE None WALLTIME_FORMAT %H:%M:%S\n", "Creating batch scripts\n", - "Writing case.run script from input template /glade/work/$USERrun\n", - "Writing case.st_archive script from input template /glade/work/$USER/code/my_cesm_code/cime/config/cesm/machines/template.st_archive\n", + "Writing case.run script from input template /glade/u/home/$USERrun\n", + "Writing case.st_archive script from input template /glade/u/home/$USER/code/my_cesm_code/cime/config/cesm/machines/template.st_archive\n", "Creating file case.st_archive\n", "Creating user_nl_xxx files for components and cpl\n", "If an old case build already exists, might want to run 'case.build --clean' before building\n", diff --git a/notebooks/basics/cesm_workflow/case_submit.ipynb b/notebooks/basics/cesm_workflow/case_submit.ipynb index b7b98320c..d3870ce8a 100644 --- a/notebooks/basics/cesm_workflow/case_submit.ipynb +++ b/notebooks/basics/cesm_workflow/case_submit.ipynb @@ -35,8 +35,8 @@ "*

Figure: Detailed view of the location of case.submit

*\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "- `$CIME_OUTPUT_ROOT` = `/glade/derecho/scratch/$USER`\n", "- `$EXEROOT` =`/glade/derecho/scratch/$USER/$CASE/bld` \n", "- `$RUNDIR` =`/glade/derecho/scratch/$USER/$CASE/run` " @@ -65,7 +65,7 @@ "\n", "You should still be in the `CASEROOT` directory after running `case.build`\n", "```\n", - "cd /glade/work/$USER/cases/CASE\n", + "cd /glade/u/home/$USER/cases/CASE\n", "```\n", " \n", "
\n", @@ -107,7 +107,7 @@ "Copy rpointer /glade/campaign/cesm/cesmdata/inputdata/cesm2_init/b.e20.B1850.f19_g17.release_cesm2_1_0.020/0301-01-01/rpointer.drv\n", "Creating component namelists\n", " Calling /glade/u/home/$USER/my_cesm_code/components/cam//cime_config/buildnml\n", - "CAM namelist copy: file1 /glade/work/$USER/cases/b1850.basics/Buildconf/camconf/atm_in file2 /glade/derecho/scratch/$USER/b1850.basics/run/atm_in \n", + "CAM namelist copy: file1 /glade/u/home/$USER/cases/b1850.basics/Buildconf/camconf/atm_in file2 /glade/derecho/scratch/$USER/b1850.basics/run/atm_in \n", " Calling /glade/u/home/$USER/my_cesm_code/components/clm//cime_config/buildnml\n", " Calling /glade/u/home/$USER/my_cesm_code/components/cice//cime_config/buildnml\n", " Calling /glade/u/home/$USER/my_cesm_code/components/pop//cime_config/buildnml\n", diff --git a/notebooks/basics/cesm_workflow/checking_jobs_and_status.ipynb b/notebooks/basics/cesm_workflow/checking_jobs_and_status.ipynb index fe99cc33c..eea2bb839 100644 --- a/notebooks/basics/cesm_workflow/checking_jobs_and_status.ipynb +++ b/notebooks/basics/cesm_workflow/checking_jobs_and_status.ipynb @@ -87,7 +87,7 @@ "Status of the case recorded in the `$CASEROOT` CaseStatus file:

\n", "\n", "```\n", - "cd /glade/work/$USER/cases/CASE\n", + "cd /glade/u/home/$USER/cases/CASE\n", "more CaseStatus\n", "```\n", "\n", diff --git a/notebooks/basics/cesm_workflow/create_clone.ipynb b/notebooks/basics/cesm_workflow/create_clone.ipynb index 49133f88a..6b1254fd9 100644 --- a/notebooks/basics/cesm_workflow/create_clone.ipynb +++ b/notebooks/basics/cesm_workflow/create_clone.ipynb @@ -59,7 +59,7 @@ "\n", "Go to the `cime/scripts` directory in the CESM code\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "```\n", " \n", "
\n", @@ -67,7 +67,7 @@ "Example of basic `./create_clone` syntax to create CASE2:
\n", " \n", "```\n", - "./create_clone --clone /glade/work/$USER/cases/CASE1 --case /glade/work/$USER/cases/CASE2\n", + "./create_clone --clone /glade/u/home/$USER/cases/CASE1 --case /glade/u/home/$USER/cases/CASE2\n", "```\n", " \n", "\n" diff --git a/notebooks/basics/cesm_workflow/create_newcase.ipynb b/notebooks/basics/cesm_workflow/create_newcase.ipynb index 6c263ed0e..99069c31e 100644 --- a/notebooks/basics/cesm_workflow/create_newcase.ipynb +++ b/notebooks/basics/cesm_workflow/create_newcase.ipynb @@ -27,8 +27,8 @@ "*

Figure: Detailed view of the location of create_newcase

*\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "
" ] }, @@ -58,7 +58,7 @@ "\n", "Go to the `cime/scripts` directory in the CESM code
\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "```\n", " \n", "
\n", @@ -66,7 +66,7 @@ "Example of basic `./create_newcase` syntax:
\n", " \n", "```\n", - "./create_newcase --case /glade/work/$USER/cases/CASE --res RES --compset COMPSET\n", + "./create_newcase --case /glade/u/home/$USER/cases/CASE --res RES --compset COMPSET\n", "```\n", " \n", "\n", @@ -89,7 +89,7 @@ " \n", "```\n", "Compset longname is 1850_CAM60_CLM50%BGC-CROP_CICE_POP2%ECO%ABIO-DIC_MOSART_CISM2%NOEVOLVE_WW3_BGC%BDRD\n", - "Compset specification file is /glade/work/$USER/code/cesm2.1.1/cime/../cime_config/config_compsets.xml\n", + "Compset specification file is /glade/u/home/$USER/code/cesm2.1.1/cime/../cime_config/config_compsets.xml\n", "Compset forcing is 1850\n", "Com forcing is Biogeochemistry intercomponent with diagnostic CO2\n", "ATM component is CAM cam6 physics:\n", @@ -100,7 +100,7 @@ "GLC component is cism2 (default, higher-order, can run in parallel):cism ice evolution turned off (this is the standard configuration unless you're explicitly interested in ice evolution):\n", "WAV component is Wave Watch\n", "ESP component is \n", - "Pes specification file is /glade/work/$USER/code/cesm2.1.1/cime/../cime_config/config_pes.xml\n", + "Pes specification file is /glade/u/home/$USER/code/cesm2.1.1/cime/../cime_config/config_pes.xml\n", "Compset specific settings: name is RUN_STARTDATE and value is 0001-01-01\n", "Compset specific settings: name is RUN_REFDATE and value is 0301-01-01\n", "Compset specific settings: name is RUN_TYPE and value is hybrid\n", @@ -131,7 +131,7 @@ "Batch_system_type is pbs\n", "job is case.run USER_REQUESTED_WALLTIME None USER_REQUESTED_QUEUE None WALLTIME_FORMAT %H:%M:%S\n", "job is case.st_archive USER_REQUESTED_WALLTIME None USER_REQUESTED_QUEUE None WALLTIME_FORMAT %H:%M:%S\n", - " Creating Case directory /glade/work/$USER/cases/b1850.basics\n", + " Creating Case directory /glade/u/home/$USER/cases/b1850.basics\n", "\n", "```\n", "\n", @@ -179,7 +179,7 @@ "id": "0ea36beb-fe98-4289-a15e-37c21ff2f4ad", "metadata": {}, "source": [ - "`--case` is the argument that specifies the **name** and **location** of the case being created. In the example above, the casename is `CASE` and the location of the case is `/glade/work/$USER/cases/`. Note that if a path preceding the casename is not specified, then the case is created as a subdirectory of the `$CIMEROOT/scripts` directory.\n" + "`--case` is the argument that specifies the **name** and **location** of the case being created. In the example above, the casename is `CASE` and the location of the case is `/glade/u/home/$USER/cases/`. Note that if a path preceding the casename is not specified, then the case is created as a subdirectory of the `$CIMEROOT/scripts` directory.\n" ] }, { @@ -187,7 +187,7 @@ "id": "bb90ccd2-b4d4-4ab7-96ec-749a596f25ae", "metadata": {}, "source": [ - "- The path `/glade/work/$USER/cases/CASE` is your workspace `CASEROOT`, as described in the [workspaces section](https://ncar.github.io/CESM-Tutorial/notebooks/basics/cesm_workspaces.html#workspace-overview)." + "- The path `/glade/u/home/$USER/cases/CASE` is your workspace `CASEROOT`, as described in the [workspaces section](https://ncar.github.io/CESM-Tutorial/notebooks/basics/cesm_workspaces.html#workspace-overview)." ] }, { @@ -409,7 +409,7 @@ "Cime Tool for listing configurations:

\n", "\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./query_config --compsets\n", "```\n", "" diff --git a/notebooks/basics/cesm_workflow/model_output.ipynb b/notebooks/basics/cesm_workflow/model_output.ipynb index feebad7b9..218f6b861 100644 --- a/notebooks/basics/cesm_workflow/model_output.ipynb +++ b/notebooks/basics/cesm_workflow/model_output.ipynb @@ -28,8 +28,8 @@ "\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "- `$EXEROOT` =`/glade/derecho/scratch/$USER/$CASE/bld` \n", "- `$RUNDIR` =`/glade/derecho/scratch/$USER/$CASE/run` \n", "- `$DOUT_S_ROOT` =`/glade/derecho/scratch/$USER/archive/$CASE` " diff --git a/notebooks/basics/cesm_workspaces.ipynb b/notebooks/basics/cesm_workspaces.ipynb index 2c00a02dc..d287b1c6f 100644 --- a/notebooks/basics/cesm_workspaces.ipynb +++ b/notebooks/basics/cesm_workspaces.ipynb @@ -44,9 +44,9 @@ "*

Figure: Overview of the CESM2 Workspace Directories

*\n", "\n", "For the current tutorial on derecho, the paths are:\n", - "- `$SRCROOT` = `/glade/work/$USER/code/my_cesm_code`\n", + "- `$SRCROOT` = `/glade/u/home/$USER/code/my_cesm_code`\n", "- `$DIN_LOC_ROOT` = `/glade/campaign/cesm/cesmdata/cseg/inputdata`\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`\n", + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`\n", "- `$CIME_OUTPUT_ROOT` = `/glade/derecho/scratch/$USER`\n", "- `$EXEROOT` =`/glade/derecho/scratch/$USER/$CASE/bld` \n", "- `$RUNDIR` =`/glade/derecho/scratch/$USER/$CASE/run` \n", @@ -91,7 +91,7 @@ "
\n", "\n", "```\n", - "cd /glade/work/$USER\n", + "cd /glade/u/home/$USER\n", "mkdir code\n", "```\n", " \n", @@ -122,7 +122,7 @@ "
\n", "\n", "```\n", - "cd /glade/work/$USER\n", + "cd /glade/u/home/$USER\n", "mkdir cases\n", "```\n", " \n", diff --git a/notebooks/basics/code/cesm_code_explore.ipynb b/notebooks/basics/code/cesm_code_explore.ipynb index fe18a4f87..3ddbe7a7c 100644 --- a/notebooks/basics/code/cesm_code_explore.ipynb +++ b/notebooks/basics/code/cesm_code_explore.ipynb @@ -32,7 +32,7 @@ "*

Figure: Detailed view of the CESM2 Code Directory

*\n", "\n", "For the current tutorial on derecho, the paths are: \n", - "- `$SRCROOT = /glade/work/$USER/code/my_cesm_code` " + "- `$SRCROOT = /glade/u/home/$USER/code/my_cesm_code` " ] }, { @@ -55,7 +55,7 @@ "Expected output:
\n", "\n", "```\n", - "/glade/work/$USER/code/my_cesm_code\n", + "/glade/u/home/$USER/code/my_cesm_code\n", "```\n", "
\n", "\n", @@ -63,7 +63,7 @@ "If you have not done anything since the last exercise then you will already be in the `$SRCROOT` location. If your output doesn't match the path above, then change the current directory to your Workspace Code directory:
\n", "\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code\n", + "cd /glade/u/home/$USER/code/my_cesm_code\n", "```\n", "
\n", " \n", @@ -193,7 +193,7 @@ "Change back to the Code Workspace Location:
\n", "\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code\n", + "cd /glade/u/home/$USER/code/my_cesm_code\n", "```\n", "OR\n", "Alternatively, you can use the `cd ../..` to move up two levels in the directory hierarchy.\n", diff --git a/notebooks/basics/code/git_download_cesm.ipynb b/notebooks/basics/code/git_download_cesm.ipynb index 36422ad2d..a2c13c154 100644 --- a/notebooks/basics/code/git_download_cesm.ipynb +++ b/notebooks/basics/code/git_download_cesm.ipynb @@ -60,7 +60,7 @@ "
\n", "\n", "```\n", - "cd /glade/work/$USER\n", + "cd /glade/u/home/$USER\n", "mkdir code\n", "```\n", " \n", @@ -86,7 +86,7 @@ "Change the current directory to the code workspace directory:
\n", "\n", "```\n", - "cd /glade/work/$USER/code\n", + "cd /glade/u/home/$USER/code\n", "```\n", "
\n", " \n", @@ -227,7 +227,7 @@ "Exercise: Run the `checkout_externals` command to download all the component models:
\n", "\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code\n", + "cd /glade/u/home/$USER/code/my_cesm_code\n", "./manage_externals/checkout_externals\n", "```\n", "
\n", @@ -251,15 +251,15 @@ "\n", " where `$USER` will be replaced by your user name\n", "```\n", - "Processing externals description file : Externals.cfg (/glade/work/$USER/code/my_cesm_code)\n", + "Processing externals description file : Externals.cfg (/glade/u/home/$USER/code/my_cesm_code)\n", "Checking local status of required & optional components: cam, cice, cime, cism, clm, mosart, pop, rtm, ww3, \n", - "Checking out externals: cime, cam, Processing externals description file : Externals_CAM.cfg (/glade/work/$USER/code/my_cesm_code/components/cam)\n", + "Checking out externals: cime, cam, Processing externals description file : Externals_CAM.cfg (/glade/u/home/$USER/code/my_cesm_code/components/cam)\n", "Checking out externals: chem_proc, carma, clubb, cosp2, \n", - "cice, cism, Processing externals description file : Externals_CISM.cfg (/glade/work/$USER/code/my_cesm_code/components/cism)\n", + "cice, cism, Processing externals description file : Externals_CISM.cfg (/glade/u/home/$USER/code/my_cesm_code/components/cism)\n", "Checking out externals: source_cism, \n", - "clm, Processing externals description file : Externals_CLM.cfg (/glade/work/$USER/code/my_cesm_code/components/clm)\n", + "clm, Processing externals description file : Externals_CLM.cfg (/glade/u/home/$USER/code/my_cesm_code/components/clm)\n", "Checking out externals: fates, ptclm, \n", - "mosart, pop, Processing externals description file : Externals_POP.cfg (/glade/work/$USER/code/my_cesm_code/components/pop)\n", + "mosart, pop, Processing externals description file : Externals_POP.cfg (/glade/u/home/$USER/code/my_cesm_code/components/pop)\n", "Checking out externals: cvmix, marbl, \n", "rtm, ww3, \n", "```\n", @@ -273,7 +273,7 @@ "id": "74d14003-78cc-48e6-bcbc-622f0150dfed", "metadata": {}, "source": [ - "- The path `/glade/work/$USER/code/my_cesm_code` is your workspace `$SRCROOT`, as described in the [workspaces section](https://ncar.github.io/CESM-Tutorial/notebooks/basics/cesm_workspaces.html#workspace-overview)." + "- The path `/glade/u/home/$USER/code/my_cesm_code` is your workspace `$SRCROOT`, as described in the [workspaces section](https://ncar.github.io/CESM-Tutorial/notebooks/basics/cesm_workspaces.html#workspace-overview)." ] }, { @@ -310,12 +310,12 @@ "If you download CESM with the instructions above, the CESM code is located in:\n", "\n", "```\n", - "/glade/work/$USER/code/my_cesm_code\n", + "/glade/u/home/$USER/code/my_cesm_code\n", "```\n", "\n", "To navigate to that directory, use the UNIX command `cd`:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code\n", + "cd /glade/u/home/$USER/code/my_cesm_code\n", "```\n", "\n", "If you are not familiar with UNIX commands, please review the [UNIX chapter](https://ncar.github.io/CESM-Tutorial/notebooks/resources/unix.html) of this documentation. \n", diff --git a/notebooks/basics/exercises/extra.ipynb b/notebooks/basics/exercises/extra.ipynb index 1cfb184b4..61f342479 100644 --- a/notebooks/basics/exercises/extra.ipynb +++ b/notebooks/basics/exercises/extra.ipynb @@ -32,7 +32,7 @@ "
\n", " \n", "```\n", - "cd /glade/work/$USER/cases/b1850.basics/\n", + "cd /glade/u/home/$USER/cases/b1850.basics/\n", "```\n", "
" ] @@ -118,7 +118,7 @@ "
\n", " \n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", "```\n", "
" ] diff --git a/notebooks/basics/exercises/first_B1850.ipynb b/notebooks/basics/exercises/first_B1850.ipynb index 99894df55..e19562969 100644 --- a/notebooks/basics/exercises/first_B1850.ipynb +++ b/notebooks/basics/exercises/first_B1850.ipynb @@ -39,7 +39,7 @@ "\n", "Did you already create a `cases` directory where you will put all new cases\n", "```\n", - "cd /glade/work/$USER\n", + "cd /glade/u/home/$USER\n", "mkdir cases\n", "```\n", " \n", @@ -47,7 +47,7 @@ "\n", "You can create a new case with the command:\n", "```\n", - "./create_newcase --case /glade/work/$USER/cases/CASE --res RES --compset COMPSET\n", + "./create_newcase --case /glade/u/home/$USER/cases/CASE --res RES --compset COMPSET\n", "```\n", "Make sure you use the correct information for the CASE, RES, and COMPSET inputs.\n", "\n", @@ -86,13 +86,13 @@ " \n", "Create a new case b1850.basics with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", - "./create_newcase --case /glade/work/$USER/cases/b1850.basics --res f19_g17 --compset B1850\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", + "./create_newcase --case /glade/u/home/$USER/cases/b1850.basics --res f19_g17 --compset B1850\n", "```\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/b1850.basics \n", + "cd /glade/u/home/$USER/cases/b1850.basics \n", "./case.setup\n", "```\n", " \n", diff --git a/notebooks/basics/exercises/second_B1850.ipynb b/notebooks/basics/exercises/second_B1850.ipynb index 12a2fcdd9..785d94fe4 100644 --- a/notebooks/basics/exercises/second_B1850.ipynb +++ b/notebooks/basics/exercises/second_B1850.ipynb @@ -73,7 +73,7 @@ " \n", "Go to your b1850.basics case directory:\n", "```\n", - "cd /glade/work/$USER/cases/b1850.basics\n", + "cd /glade/u/home/$USER/cases/b1850.basics\n", "```\n", "\n", "Changing xml files:\n", diff --git a/notebooks/challenge/cam-chem_waccm/exercise_1.ipynb b/notebooks/challenge/cam-chem_waccm/exercise_1.ipynb index 1268cbed8..f359642d8 100644 --- a/notebooks/challenge/cam-chem_waccm/exercise_1.ipynb +++ b/notebooks/challenge/cam-chem_waccm/exercise_1.ipynb @@ -127,7 +127,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET\n", "```\n", "You may need to add ``--project \"UESM0013\"`` when creating a new case.\n", diff --git a/notebooks/challenge/cam-chem_waccm/exercise_2.ipynb b/notebooks/challenge/cam-chem_waccm/exercise_2.ipynb index c6b24d51e..fef70c6ca 100644 --- a/notebooks/challenge/cam-chem_waccm/exercise_2.ipynb +++ b/notebooks/challenge/cam-chem_waccm/exercise_2.ipynb @@ -120,7 +120,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET\n", "```\n", "You may need to add ``--project \"UESM0013\"`` when creating a new case.\n", diff --git a/notebooks/challenge/cam-chem_waccm/exercise_3.ipynb b/notebooks/challenge/cam-chem_waccm/exercise_3.ipynb index 2cf02e099..e4dcf8d98 100644 --- a/notebooks/challenge/cam-chem_waccm/exercise_3.ipynb +++ b/notebooks/challenge/cam-chem_waccm/exercise_3.ipynb @@ -95,7 +95,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET\n", "```\n", "You may need to add ``--project \"UESM0013\"`` when creating a new case.\n", diff --git a/notebooks/challenge/cam/cam.ipynb b/notebooks/challenge/cam/cam.ipynb index e6ae0430b..d7f6ff304 100644 --- a/notebooks/challenge/cam/cam.ipynb +++ b/notebooks/challenge/cam/cam.ipynb @@ -73,11 +73,11 @@ "\n", "If you want to run a different configuration from what you’ve learned here, it is important to learn how to find and/or modify a compset.\n", "\n", - "The tool `query compsets` allows you to find more information about the available. This tool is located in the same directory as `create_newcase` in `/glade/work/$USER/code/my_cesm_code/cime/scripts/`:\n", + "The tool `query compsets` allows you to find more information about the available. This tool is located in the same directory as `create_newcase` in `/glade/u/home/$USER/code/my_cesm_code/cime/scripts/`:\n", "\n", "The command is:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./query_config --compsets\n", "```\n", "\n", @@ -95,7 +95,7 @@ "\n", "The command gives a list of all the compsets available, and what components are included. \n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./query_config --compsets\n", "```\n", "This can show exactly what you ran before, and what is possible. To narrow down your choices:\n", diff --git a/notebooks/challenge/cam/exercise_1.ipynb b/notebooks/challenge/cam/exercise_1.ipynb index 788b21a48..41fd9a133 100644 --- a/notebooks/challenge/cam/exercise_1.ipynb +++ b/notebooks/challenge/cam/exercise_1.ipynb @@ -99,7 +99,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET\n", "```\n", "\n", diff --git a/notebooks/challenge/cam/exercise_2.ipynb b/notebooks/challenge/cam/exercise_2.ipynb index aa9b13681..e76a1b721 100644 --- a/notebooks/challenge/cam/exercise_2.ipynb +++ b/notebooks/challenge/cam/exercise_2.ipynb @@ -104,7 +104,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET --run-unsupported\n", "```\n", "\n", diff --git a/notebooks/challenge/cam/exercise_3.ipynb b/notebooks/challenge/cam/exercise_3.ipynb index e5842df3d..61be62837 100644 --- a/notebooks/challenge/cam/exercise_3.ipynb +++ b/notebooks/challenge/cam/exercise_3.ipynb @@ -112,7 +112,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET --run-unsupported\n", "```\n", "\n", diff --git a/notebooks/challenge/cam/exercise_4.ipynb b/notebooks/challenge/cam/exercise_4.ipynb index c272d28c2..c1248d368 100644 --- a/notebooks/challenge/cam/exercise_4.ipynb +++ b/notebooks/challenge/cam/exercise_4.ipynb @@ -101,7 +101,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET \n", "```\n", "\n", diff --git a/notebooks/challenge/cam/exercise_5.ipynb b/notebooks/challenge/cam/exercise_5.ipynb index 5de298e03..aff3a4602 100644 --- a/notebooks/challenge/cam/exercise_5.ipynb +++ b/notebooks/challenge/cam/exercise_5.ipynb @@ -103,7 +103,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET \n", "```\n", "\n", diff --git a/notebooks/challenge/cam/exercise_6.ipynb b/notebooks/challenge/cam/exercise_6.ipynb index de52d31ed..1534f50c5 100644 --- a/notebooks/challenge/cam/exercise_6.ipynb +++ b/notebooks/challenge/cam/exercise_6.ipynb @@ -101,7 +101,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET \n", "```\n", "\n", @@ -128,7 +128,7 @@ "\n", "- copy `zm_conv.F90` into the `SourceMods/src.cam` directory and modify it\n", "```\n", - "cp /glade/work/$USER/code/my_cesm_code/components/cam/src/physics/cam/zm_conv.F90 SourceMods/src.cam\n", + "cp /glade/u/home/$USER/code/my_cesm_code/components/cam/src/physics/cam/zm_conv.F90 SourceMods/src.cam\n", "```\n", "\n", "- In the subroutine `zm_convr`\n", diff --git a/notebooks/challenge/cice/cice_exercise_1.ipynb b/notebooks/challenge/cice/cice_exercise_1.ipynb index fb6e9440d..645599f3d 100644 --- a/notebooks/challenge/cice/cice_exercise_1.ipynb +++ b/notebooks/challenge/cice/cice_exercise_1.ipynb @@ -119,8 +119,8 @@ " \n", "Create a new case g_control with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_newcase --case /glade/work/$USER/cases/g_control --compset G --res T62_g37 \n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_newcase --case /glade/u/home/$USER/cases/g_control --compset G --res T62_g37 \n", "```\n", "
\n", "\n", diff --git a/notebooks/challenge/cice/cice_exercise_2.ipynb b/notebooks/challenge/cice/cice_exercise_2.ipynb index 6ac8c1817..cafe133fb 100644 --- a/notebooks/challenge/cice/cice_exercise_2.ipynb +++ b/notebooks/challenge/cice/cice_exercise_2.ipynb @@ -143,14 +143,14 @@ " \n", "Clone a new case g_snowalbedo from your control experiment with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_clone --case /glade/work/$USER/cases/g_snowalbedo --clone /glade/work/$USER/cases/g_control\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_clone --case /glade/u/home/$USER/cases/g_snowalbedo --clone /glade/u/home/$USER/cases/g_control\n", "```\n", "
\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/g_snowalbedo\n", + "cd /glade/u/home/$USER/cases/g_snowalbedo\n", "./case.setup\n", "```\n", "
\n", diff --git a/notebooks/challenge/cice/cice_exercise_3.ipynb b/notebooks/challenge/cice/cice_exercise_3.ipynb index c1ad4f13d..65a5c5880 100644 --- a/notebooks/challenge/cice/cice_exercise_3.ipynb +++ b/notebooks/challenge/cice/cice_exercise_3.ipynb @@ -35,7 +35,7 @@ " \n", "Set the run length to **1 year**. \n", "\n", - "Go to the main source directory under /glade/work/$USER/code/my_cesm_code/components/cice/src and search for the variable `ksno`.\n", + "Go to the main source directory under /glade/u/home/$USER/code/my_cesm_code/components/cice/src and search for the variable `ksno`.\n", " \n", "Copy the source module from the main CESM code directory into $CASE/SourceMods/src.cice.\n", "\n", @@ -115,14 +115,14 @@ " \n", " Clone a new case g_ksno from your control experiment with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_clone --case /glade/work/$USER/cases/g_ksno --clone /glade/work/$USER/cases/g_control\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_clone --case /glade/u/home/$USER/cases/g_ksno --clone /glade/u/home/$USER/cases/g_control\n", "```\n", "
\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/g_ksno\n", + "cd /glade/u/home/$USER/cases/g_ksno\n", "./case.setup\n", "```\n", "
\n", @@ -136,9 +136,9 @@ "\n", "Copy the file from the $CODEROOT directory:\n", "```\n", - "cp /glade/work/$USER/code/my_cesm_code/components/cice/src/drivers/cesm/ice_constants.F90 /glade/work/$USER/cases/g_ksno/SourceMods/src.cice\n", + "cp /glade/u/home/$USER/code/my_cesm_code/components/cice/src/drivers/cesm/ice_constants.F90 /glade/u/home/$USER/cases/g_ksno/SourceMods/src.cice\n", "\n", - "vi /glade/work/$USER/cases/g_ksno/SourceMods/src.cice/ice_constants.F90\n", + "vi /glade/u/home/$USER/cases/g_ksno/SourceMods/src.cice/ice_constants.F90\n", "```\n", "
\n", "\n", diff --git a/notebooks/challenge/clm_ctsm/clm_exercise_1.ipynb b/notebooks/challenge/clm_ctsm/clm_exercise_1.ipynb index df8606e3f..ba568d4af 100644 --- a/notebooks/challenge/clm_ctsm/clm_exercise_1.ipynb +++ b/notebooks/challenge/clm_ctsm/clm_exercise_1.ipynb @@ -37,7 +37,7 @@ " \n", "Create a new case i.day5.a with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", "./create_newcase --case ~/cases/i.day5.a --compset I2000Clm50Sp --res f09_g17_gl4 --run-unsupported\n", "```\n", "
\n", diff --git a/notebooks/challenge/clm_ctsm/clm_exercise_2.ipynb b/notebooks/challenge/clm_ctsm/clm_exercise_2.ipynb index 93c53b903..e07bdace7 100644 --- a/notebooks/challenge/clm_ctsm/clm_exercise_2.ipynb +++ b/notebooks/challenge/clm_ctsm/clm_exercise_2.ipynb @@ -56,7 +56,7 @@ " \n", "Create a new case i.day5.b :\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", "./create_newcase --case ~/cases/i.day5.b --compset IHistClm50BgcCrop --res f09_g17_gl4 --run-unsupported\n", "```\n", "
\n", diff --git a/notebooks/challenge/clm_ctsm/clm_exercise_3.ipynb b/notebooks/challenge/clm_ctsm/clm_exercise_3.ipynb index 3dae486b9..99939c22e 100644 --- a/notebooks/challenge/clm_ctsm/clm_exercise_3.ipynb +++ b/notebooks/challenge/clm_ctsm/clm_exercise_3.ipynb @@ -53,7 +53,7 @@ " \n", "Create a clone from the control experiment i.day5.a_pft :\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", "./create_clone --case ~/cases/i.day5.a_pft --clone ~/cases/i.day5.a\n", "```\n", "
\n", diff --git a/notebooks/challenge/mom/mom_exercise_5.ipynb b/notebooks/challenge/mom/mom_exercise_5.ipynb index dd239be2f..0eaf132be 100644 --- a/notebooks/challenge/mom/mom_exercise_5.ipynb +++ b/notebooks/challenge/mom/mom_exercise_5.ipynb @@ -32,7 +32,7 @@ "Change the current directory to the code workspace directory:
\n", "\n", "```\n", - "cd /glade/work/$USER/code\n", + "cd /glade/u/home/$USER/code\n", "```\n", "
\n", " \n", @@ -51,7 +51,7 @@ "
\n", " \n", "```\n", - "cd /glade/work/$USER/code/cesm2_3_beta17\n", + "cd /glade/u/home/$USER/code/cesm2_3_beta17\n", "./manage_externals/checkout_externals -o\n", "```\n", "
\n", @@ -149,8 +149,8 @@ " \n", "Create a new case gmom_jra.run_length with the command:\n", "```\n", - "cd /glade/work/$USER/code/cesm2_3_beta17/cime/scripts/\n", - "./create_newcase --case /glade/work/$USER/cases/gmom_jra.run_length --compset GMOM_JRA --res TL319_t232 \n", + "cd /glade/u/home/$USER/code/cesm2_3_beta17/cime/scripts/\n", + "./create_newcase --case /glade/u/home/$USER/cases/gmom_jra.run_length --compset GMOM_JRA --res TL319_t232 \n", "```\n", "
\n", "\n", diff --git a/notebooks/challenge/paleo/exercise_1.ipynb b/notebooks/challenge/paleo/exercise_1.ipynb index b0e2ad602..9696d2ae9 100644 --- a/notebooks/challenge/paleo/exercise_1.ipynb +++ b/notebooks/challenge/paleo/exercise_1.ipynb @@ -110,7 +110,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET --project $PROJECT\n", "```\n", "\n", diff --git a/notebooks/challenge/paleo/exercise_2.ipynb b/notebooks/challenge/paleo/exercise_2.ipynb index 1c217ee07..49a5caae4 100644 --- a/notebooks/challenge/paleo/exercise_2.ipynb +++ b/notebooks/challenge/paleo/exercise_2.ipynb @@ -125,7 +125,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET --project $PROJECT\n", "```\n", "\n", diff --git a/notebooks/challenge/paleo/exercise_3.ipynb b/notebooks/challenge/paleo/exercise_3.ipynb index 32f29b485..738b84561 100644 --- a/notebooks/challenge/paleo/exercise_3.ipynb +++ b/notebooks/challenge/paleo/exercise_3.ipynb @@ -69,7 +69,7 @@ "Set environment variables with the commands:\n", "\n", "```\n", - "cd /glade/work/$USER/code \n", + "cd /glade/u/home/$USER/code \n", "git clone https://github.com/NCAR/iCESM1.3_iHESP_hires iCESM1.3_iHESP_hires \n", "cd iCESM1.3_iHESP_hires \n", "./manage_externals/checkout_externals \n", @@ -119,7 +119,7 @@ "\n", "Create a new case with the command ``create_newcase``:\n", "```\n", - "cd /glade/work/$USER/code/iCESM1.3_iHESP_hires/cime/scripts/\n", + "cd /glade/u/home/$USER/code/iCESM1.3_iHESP_hires/cime/scripts/\n", "./create_newcase --case $CASEDIR --res $RESOLUTION --compset $COMPSET --project $PROJECT --run-unsupported \n", "```\n", "\n", diff --git a/notebooks/challenge/pop/pop_exercise_1.ipynb b/notebooks/challenge/pop/pop_exercise_1.ipynb index 07c1e07a6..ac110d238 100644 --- a/notebooks/challenge/pop/pop_exercise_1.ipynb +++ b/notebooks/challenge/pop/pop_exercise_1.ipynb @@ -89,8 +89,8 @@ " \n", "Create a new case g_control with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_newcase --case /glade/work/$USER/cases/g_control --compset G --res T62_g37 \n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_newcase --case /glade/u/home/$USER/cases/g_control --compset G --res T62_g37 \n", "```\n", "
\n", "\n", diff --git a/notebooks/challenge/pop/pop_exercise_2.ipynb b/notebooks/challenge/pop/pop_exercise_2.ipynb index 61e72ce81..d40e4dc65 100644 --- a/notebooks/challenge/pop/pop_exercise_2.ipynb +++ b/notebooks/challenge/pop/pop_exercise_2.ipynb @@ -84,13 +84,13 @@ " \n", "Clone a new case g_overflows from your control experiment with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_clone --case /glade/work/$USER/cases/g_overflows --clone /glade/work/$USER/cases/g_control\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_clone --case /glade/u/home/$USER/cases/g_overflows --clone /glade/u/home/$USER/cases/g_control\n", "```\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/g_overflows\n", + "cd /glade/u/home/$USER/cases/g_overflows\n", "./case.setup\n", "```\n", "\n", diff --git a/notebooks/challenge/pop/pop_exercise_3.ipynb b/notebooks/challenge/pop/pop_exercise_3.ipynb index 5321da323..1681d67a6 100644 --- a/notebooks/challenge/pop/pop_exercise_3.ipynb +++ b/notebooks/challenge/pop/pop_exercise_3.ipynb @@ -79,13 +79,13 @@ " \n", "Clone a new case g_windstress from your control experiment with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_clone --case /glade/work/$USER/cases/g_windstress --clone /glade/work/$USER/cases/g_control\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_clone --case /glade/u/home/$USER/cases/g_windstress --clone /glade/u/home/$USER/cases/g_control\n", "```\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/g_windstress\n", + "cd /glade/u/home/$USER/cases/g_windstress\n", "./case.setup\n", "```\n", "\n", @@ -97,7 +97,7 @@ " \n", "Copy the forcing_coupled.F90 file from the control case to the ocean SourceMods.\n", "``` \n", - "cp /glade/work/$USER/code/my_cesm_code/components/pop/source/forcing_coupled.F90 /glade/work/$USER/cases/g_windstress/SourceMods/src.pop\n", + "cp /glade/u/home/$USER/code/my_cesm_code/components/pop/source/forcing_coupled.F90 /glade/u/home/$USER/cases/g_windstress/SourceMods/src.pop\n", "``` \n", " \n", "Edit the file forcing_coupled.F90 in the rotate_wind_stress routine after ```SMFT(:,:,1,:)``` is defined:\n", diff --git a/notebooks/challenge/pop/pop_exercise_4.ipynb b/notebooks/challenge/pop/pop_exercise_4.ipynb index e16128ff3..6b2f4c173 100644 --- a/notebooks/challenge/pop/pop_exercise_4.ipynb +++ b/notebooks/challenge/pop/pop_exercise_4.ipynb @@ -86,13 +86,13 @@ " \n", "Create a new case G1850ECO with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - "./create_newcase --case /glade/work/$USER/cases/G1850ECO --compset G1850ECO --res T62_g37\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + "./create_newcase --case /glade/u/home/$USER/cases/G1850ECO --compset G1850ECO --res T62_g37\n", "```\n", "\n", "Case setup:\n", "``` \n", - "cd /glade/work/$USER/cases/G1850ECO \n", + "cd /glade/u/home/$USER/cases/G1850ECO \n", "./case.setup\n", "```\n", " \n", diff --git a/notebooks/diagnostics/additional/uxarray.ipynb b/notebooks/diagnostics/additional/uxarray.ipynb index f33c2d45d..b02ecaf3e 100644 --- a/notebooks/diagnostics/additional/uxarray.ipynb +++ b/notebooks/diagnostics/additional/uxarray.ipynb @@ -207,7 +207,7 @@ "name": "stderr", "output_type": "stream", "text": [ - "/glade/work/oero/conda-envs/uxarray-dask/lib/python3.12/site-packages/uxarray/grid/geometry.py:95: UserWarning: Converting to a GeoDataFrame with over 1,000,000 faces may take some time.\n", + "/glade/u/home/oero/conda-envs/uxarray-dask/lib/python3.12/site-packages/uxarray/grid/geometry.py:95: UserWarning: Converting to a GeoDataFrame with over 1,000,000 faces may take some time.\n", " warnings.warn(\n" ] }, diff --git a/notebooks/diagnostics/mom/basics_mom.ipynb b/notebooks/diagnostics/mom/basics_mom.ipynb index 135954736..15ad332bc 100644 --- a/notebooks/diagnostics/mom/basics_mom.ipynb +++ b/notebooks/diagnostics/mom/basics_mom.ipynb @@ -125,7 +125,7 @@ "\n", "
\n", " \n", - "/glade/work/$USER/cases/gmom_jra.run_length/CaseDocs/diag_table\n", + "/glade/u/home/$USER/cases/gmom_jra.run_length/CaseDocs/diag_table\n", "\n", "
\n", "\n", diff --git a/notebooks/modifications/xml/exercises/xml_length_exercise.ipynb b/notebooks/modifications/xml/exercises/xml_length_exercise.ipynb index 1f1592e53..5b66bff56 100644 --- a/notebooks/modifications/xml/exercises/xml_length_exercise.ipynb +++ b/notebooks/modifications/xml/exercises/xml_length_exercise.ipynb @@ -72,18 +72,18 @@ " \n", "\n", " \n", - "From the `SRCROOT` (`/glade/work/$USER/code/my_cesm_code`) directory, create your case:\n", + "From the `SRCROOT` (`/glade/u/home/$USER/code/my_cesm_code`) directory, create your case:\n", " \n", "```\n", - " cd /glade/work/$USER/code/my_cesm_code/cime/scripts\n", - " ./create_newcase --case /glade/work/$USER/cases/b1850.run_length --res f19_g17 --compset B1850\n", + " cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts\n", + " ./create_newcase --case /glade/u/home/$USER/cases/b1850.run_length --res f19_g17 --compset B1850\n", "```\n", "
\n", " \n", "In your case directory, change debugging levels and set runtime variables:\n", "\n", "```\n", - " cd /glade/work/$USER/cases/b1850.run_length\n", + " cd /glade/u/home/$USER/cases/b1850.run_length\n", " ./xmlchange INFO_DBUG=2,STOP_N=3,STOP_OPTION=nmonths\n", " ./xmlchange --subgroup case.run JOB_WALLCLOCK_TIME=2:00:00\n", "```\n", @@ -124,7 +124,7 @@ "1. To continue the run, set `CONTINUE_RUN` to `TRUE`\n", " \n", "```\n", - " cd /glade/work/$USER/cases/b1850.run_length\n", + " cd /glade/u/home/$USER/cases/b1850.run_length\n", " ./xmlchange CONTINUE_RUN=TRUE\n", "```\n", "\n", diff --git a/notebooks/modifications/xml/exercises/xml_runtype_exercise.ipynb b/notebooks/modifications/xml/exercises/xml_runtype_exercise.ipynb index 69b8ced50..c2de435f3 100644 --- a/notebooks/modifications/xml/exercises/xml_runtype_exercise.ipynb +++ b/notebooks/modifications/xml/exercises/xml_runtype_exercise.ipynb @@ -68,8 +68,8 @@ "1. Create your new case with the command:\n", " \n", "```\n", - " cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - " ./create_newcase --case /glade/work/$USER/cases/b1850.branch --res f19_g17 --compset B1850\n", + " cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + " ./create_newcase --case /glade/u/home/$USER/cases/b1850.branch --res f19_g17 --compset B1850\n", "```\n", "
\n", "\n", @@ -77,7 +77,7 @@ "2. In your case directory, change the run type to branch, and change the associated RUN_* variables:\n", "\n", "```\n", - " cd /glade/work/$USER/cases/b1850.branch\n", + " cd /glade/u/home/$USER/cases/b1850.branch\n", " ./xmlchange RUN_TYPE=branch\n", " ./xmlchange RUN_REFCASE=b1850.run_length,RUN_REFDATE=0001-04-01,GET_REFCASE=FALSE\n", "```\n", diff --git a/notebooks/modifications/xml/exercises/xml_timestep_exercise.ipynb b/notebooks/modifications/xml/exercises/xml_timestep_exercise.ipynb index 2f364e4a9..471d52efb 100644 --- a/notebooks/modifications/xml/exercises/xml_timestep_exercise.ipynb +++ b/notebooks/modifications/xml/exercises/xml_timestep_exercise.ipynb @@ -60,15 +60,15 @@ "1. From the script directory, create your case:\n", " \n", "```\n", - " cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", - " ./create_newcase --case /glade/work/$USER/cases/b1850.timestep --res f19_g17 --compset B1850\n", + " cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", + " ./create_newcase --case /glade/u/home/$USER/cases/b1850.timestep --res f19_g17 --compset B1850\n", "```\n", " \n", "
\n", "2. In your case directory, change run type and runtime variables:\n", " \n", "```\n", - " cd /glade/work/$USER/cases/b1850.timestep\n", + " cd /glade/u/home/$USER/cases/b1850.timestep\n", " ./xmlchange RUN_TYPE=hybrid\n", " ./xmlchange RUN_REFCASE=b1850.run_length,RUN_REFDATE=0001-04-01,GET_REFCASE=FALSE,JOB_WALLCLOCK_TIME=2:00:00\n", "```\n", diff --git a/notebooks/modifications/xml/overview.ipynb b/notebooks/modifications/xml/overview.ipynb index 37d127221..e4b65095b 100644 --- a/notebooks/modifications/xml/overview.ipynb +++ b/notebooks/modifications/xml/overview.ipynb @@ -80,7 +80,7 @@ "![CESM xml files](../../../images/modifications/CESM2_xml_files.png)\n", "*

Figure: Overview of the XML file locations

*\n", "For the current tutorial on derecho, the paths are:\n", - "- `$CASEROOT` = `/glade/work/$USER/cases/$CASE`" + "- `$CASEROOT` = `/glade/u/home/$USER/cases/$CASE`" ] }, { diff --git a/notebooks/namelist/exercises/exercise_cam_output.ipynb b/notebooks/namelist/exercises/exercise_cam_output.ipynb index 7125e4a83..46596092d 100644 --- a/notebooks/namelist/exercises/exercise_cam_output.ipynb +++ b/notebooks/namelist/exercises/exercise_cam_output.ipynb @@ -116,7 +116,7 @@ "\n", "Create a new case `b1850_high_freq` with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case ~/cases/b1850_high_freq --compset B1850 --res f19_g17 \n", "```\n", "\n", diff --git a/notebooks/namelist/exercises/exercise_tuning_parameter.ipynb b/notebooks/namelist/exercises/exercise_tuning_parameter.ipynb index 8a05d7a52..d4d5115b1 100644 --- a/notebooks/namelist/exercises/exercise_tuning_parameter.ipynb +++ b/notebooks/namelist/exercises/exercise_tuning_parameter.ipynb @@ -74,7 +74,7 @@ " \n", "Create a new case `b1850_dcs`with the command:\n", "```\n", - "cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + "cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case ~/cases/b1850_dcs --compset B1850 --res f19_g17 \n", "```\n", "\n", diff --git a/notebooks/sourcemods/exercises/exercise_add_field.ipynb b/notebooks/sourcemods/exercises/exercise_add_field.ipynb index e56e9c874..56ce325f6 100644 --- a/notebooks/sourcemods/exercises/exercise_add_field.ipynb +++ b/notebooks/sourcemods/exercises/exercise_add_field.ipynb @@ -78,7 +78,7 @@ " \n", "Create a new case `b1850_T750` with the command:\n", "```\n", - " cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + " cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", "./create_newcase --case ~/cases/b1850_T750 --compset B1850 --res f19_g17 \n", "```\n", "\n", diff --git a/notebooks/troubleshooting/exercises/troubleshooting_cam.ipynb b/notebooks/troubleshooting/exercises/troubleshooting_cam.ipynb index d9e2822e3..29aca109d 100644 --- a/notebooks/troubleshooting/exercises/troubleshooting_cam.ipynb +++ b/notebooks/troubleshooting/exercises/troubleshooting_cam.ipynb @@ -83,7 +83,7 @@ " \n", "Create a new case ``b1850_high_freq_bugfixing`` with the command:\n", "```\n", - " cd /glade/work/$USER/code/my_cesm_code/cime/scripts/\n", + " cd /glade/u/home/$USER/code/my_cesm_code/cime/scripts/\n", " ./create_newcase --case ~/cases/b1850_high_freq_bugfixing --compset B1850 --res f19_g17 \n", "```\n", "\n",