NCSAETK2017/setup - Revision history

Rhaas: update Google drive links

2023-04-13T16:32:15Z

update Google drive links

141.142.41.4: /* Using precompiled ET on training accounts */

2018-03-20T13:24:01Z

‎Using precompiled ET on training accounts

Rhaas: add links to lecture material to recordings

2017-08-06T20:53:58Z

add links to lecture material to recordings

Rhaas: typo

2017-08-06T20:49:58Z

typo

Rhaas: clean up sectioning

2017-08-06T20:49:11Z

clean up sectioning

Rhaas: clean up instructions a bit

2017-08-06T20:47:43Z

clean up instructions a bit

Rhaas: remove live stream

2017-08-06T20:37:23Z

remove live stream

Rhaas: add Tuesday, Friday recordings

2017-08-06T20:36:52Z

add Tuesday, Friday recordings

Rhaas: add Thursday recording

2017-08-04T12:33:38Z

add Thursday recording

Rhaas: /* Webcast */

2017-08-03T02:05:57Z

‎Webcast

@@ Line 11: / Line 11: @@
 <div><ul>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=jqgEaUjl23I Monday recording] (click on text, not image). [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
+[[Image:2017 North American Einstein Toolkit School - Day 1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=jqgEaUjl23I Monday recording] (click on text, not image). [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s?resourcekey=0-LX-8wh16a496FRy1BRYjpw&usp=sharing Lecture material]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=S3-QkujgSuM Tuesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
+[[Image:2017 North American Einstein Toolkit School - Day 2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=S3-QkujgSuM Tuesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s?resourcekey=0-LX-8wh16a496FRy1BRYjpw&usp=sharing Lecture material]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 3.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=PzB7ZN0w2sw Wednesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
+[[Image:2017 North American Einstein Toolkit School - Day 3.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=PzB7ZN0w2sw Wednesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s?resourcekey=0-LX-8wh16a496FRy1BRYjpw&usp=sharing Lecture material]]]
 </li>
 <br/>
 <li style="display: inline-block;">
-[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=9xUWzB6hM-Y Thursday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg Shared Google docs]]]
+[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=9xUWzB6hM-Y Thursday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg?resourcekey=0-lmlDUSTIZW75LNdHgVje6w&usp=share_link Shared Google docs]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=yLmPN_kcXkU Friday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg Shared Google docs]]]
+[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=yLmPN_kcXkU Friday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg?resourcekey=0-lmlDUSTIZW75LNdHgVje6w&usp=share_link Shared Google docs]]]
 </li>
 </ul></div>
@@ Line 48: / Line 48: @@
 === Handouts ===
 Please familiarize yourself with the information in the handouts before the school starts so that you can begin participating right away.
-[[Media:handout-bw.pdf|This]] handout provides details on how to log into '''Blue Waters'''. [https://drive.google.com/open?id=0Bxd8DtQy1EODMVBKZXNYUjZqbEk This] handout describes how to log into the '''jupyter''' servers we will use.
+[[Media:handout-bw.pdf|This]] handout provides details on how to log into '''Blue Waters'''. [https://drive.google.com/file/d/0Bxd8DtQy1EODMVBKZXNYUjZqbEk/view?usp=sharing&resourcekey=0-oIebsdYV3VvFGK5K36JWRA This] handout describes how to log into the '''jupyter''' servers we will use.
 === Required Software ===
@@ Line 77: / Line 77: @@
 </pre>
 [[Image:winscp2.png|thumb|WinSCP setup. Click to enlarge.]]
-* [https://winscp.net/eng/index.php WinSCP] is a Windows only GUI for scp that lets you copy files to / from clusters. To use it with Blue Waters please add "ssh h2ologin /usr/lib64/ssh/sftp-server" in the "SFTP server" box in the advanced settings. You can use [https://drive.google.com/open?id=0B4gNfWainf-5OThEb0tkSjU2MEU this saved WinSCP.ini] to import the correct settings.
+* [https://winscp.net/eng/index.php WinSCP] is a Windows only GUI for scp that lets you copy files to / from clusters. To use it with Blue Waters please add "ssh h2ologin /usr/lib64/ssh/sftp-server" in the "SFTP server" box in the advanced settings. You can use [https://drive.google.com/file/d/0B4gNfWainf-5ekdiTTBkaHJ3MW8/view?usp=share_link&resourcekey=0-sjJiI9u602Cqys2LWL--7w this saved WinSCP.ini] to import the correct settings.
 == Specific instructions for individual school modules ==

@@ Line 114: / Line 114: @@
    $ cp /u/training/tra950/ET_workshop_TL/*.th .
-uncomment <code>CactusExamples/WaveMoL</code>  and <code>CactusExamples/IDWaveMoL<code> in the thornlist
+uncomment <code>CactusExamples/WaveMoL</code>  and <code>CactusExamples/IDWaveMoL</code> in the thornlist
    $ vim ET_workshop_TL/ETK_workshop_2017.th

@@ Line 11: / Line 11: @@
 <div><ul>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=jqgEaUjl23I Monday recording] (click on text, not image)]]
+[[Image:2017 North American Einstein Toolkit School - Day 1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=jqgEaUjl23I Monday recording] (click on text, not image). [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=S3-QkujgSuM Tuesday recording] (click on text, not image)]]
+[[Image:2017 North American Einstein Toolkit School - Day 2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=S3-QkujgSuM Tuesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017 North American Einstein Toolkit School - Day 3.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=PzB7ZN0w2sw Wednesday recording] (click on text, not image)]]
+[[Image:2017 North American Einstein Toolkit School - Day 3.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=PzB7ZN0w2sw Wednesday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5aGNiZ1IyUk9ZN2s Lecture material]]]
 </li>
 <br/>
 <li style="display: inline-block;">
-[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=9xUWzB6hM-Y Thursday recording] (click on text, not image)]]
+[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=9xUWzB6hM-Y Thursday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg Shared Google docs]]]
 </li>
 <li style="display: inline-block;">
-[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=yLmPN_kcXkU Friday recording] (click on text, not image)]]
+[[Image:2017_North_American_Einstein_Toolkit_Workshop_-_Day_2.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=yLmPN_kcXkU Friday recording] (click on text, not image) [https://drive.google.com/drive/folders/0B4gNfWainf-5VlJVLWx6MFR2Vjg Shared Google docs]]]
 </li>
 </ul></div>

@@ Line 43: / Line 43: @@
 === School and workshop mailing list ===
-Please [http://lists.einsteintoolkit.org/mailman/listinfo/workshop-all sign up] for the school and workshop mailing list here. Using it you can reach all currently signed up participants. We will use for school wide announcements.
+Please [http://lists.einsteintoolkit.org/mailman/listinfo/workshop-all sign up] for the school and workshop mailing list here. Using it you can reach all currently signed up participants. We will use it for school wide announcements.
 == Pre-school setup ==

@@ Line 78: / Line 78: @@
 [[Image:winscp2.png|thumb|WinSCP setup. Click to enlarge.]]
 * [https://winscp.net/eng/index.php WinSCP] is a Windows only GUI for scp that lets you copy files to / from clusters. To use it with Blue Waters please add "ssh h2ologin /usr/lib64/ssh/sftp-server" in the "SFTP server" box in the advanced settings. You can use [https://drive.google.com/open?id=0B4gNfWainf-5OThEb0tkSjU2MEU this saved WinSCP.ini] to import the correct settings.
 === Using precompiled ET on training accounts ===

@@ Line 83: / Line 83: @@
 * add the following to your ~/.bashrc:
-export PATH=$PATH:/u/training/tra950/openmpi/bin
+  export PATH=$PATH:/u/training/tra950/openmpi/bin
-export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/u/training/tra950/openmpi/lib
+* make a folder called simulations in your <code>/scratch/training/$USER</code> folder
+  $ mkdir /scratch/training/$USER/simulations
 * copy over the precompiled ET from a pre-existing installation:
-$ cd
+  $ cd
+  $ cp /u/training/tra950/cactus.tar.gz .
-$ cp /u/training/tra950/cactus.tar.gz .
+  $ tar -xf cactus.tar.gz
 you should now have a folder cactus/Cactus containing the ET!
@@ Line 106: / Line 100: @@
 * make a par file folder and copy the following parameter files over:
-$ cd
+  $ cd
+  $ mkdir ET_workshop_par
-$ mkdir ET_workshop_par
+  $ cd ET_workshop_par
-$ cd ET_workshop_par
+* get the ET thornlist and add CactusExamples/WaveMoL and CactusExamples/IDWaveMoL
-$ cp /u/training/tra950/ET_workshop_par/*.par .
+  $ cd
-*get the ET thornlist and add CactusExamples/WaveMoL and CactusExamples/IDWaveMoL
+  $ vim ET_workshop_TL/ETK_workshop_2017.th
+  $ cd cactus
-$ cd
+  $ ./GetComponents ~/ET_workshop_TL/ETK_workshop_2017.th
 Don't update existing components  and build again after you have checked out WaveMol
 * build the Einstein Toolkit:
-$ cd ~/cactus/Cactus
+  $ cd ~/cactus/Cactus
-$ simfactory/bin/sim build etk_workshop --thornlist=thornlists/ETK_workshop_2017.th --machine=bluewaters-training --runscript=simfactory/mdb/runscripts/bluewaters-training.sh --submitscript=simfactory/mdb/submitscripts/bluewaters-training.sub
+* update the local default definitions file:
-*update the local default definitions file:
+  $ vim cactus/Cactus/simfactory/etc/defs.local.ini
-$ cactus/Cactus/simfactory/etc/defs.local.ini
+  user            = your_training_account
+  email           = your_email
-user            = your_training_account
+  allocation      = this_can_be_anything
 Leave basedir and sourcebasedir as they are.
@@ Line 156: / Line 137: @@
 * create a simulation:
-$ simfactory/bin/sim create poisson_test --parfile=~/ET_workshop_par/poisson.par --configuration=etk_workshop --machine=bluewaters-training
+  $ simfactory/bin/sim create poisson_test --parfile=~/ET_workshop_par/poisson.par --configuration=etk_workshop --machine=bluewaters-training
 * submit a simulation:
-Before you submit a simulation, follow the [[Media:handout-bw.pdf|instructions]] on how to get an interactive job on a compute node in the BW handout.
+Before you submit a simulation, follow the [[Media:handout-bw.pdf|instructions]] on how to get an interactive job on a compute node in the BW handout.<br/>
 Then, submit the simulation with:
-$ simfactory/bin/sim submit poisson_test --procs 8 --num-threads 4 --machine=bluewaters-training --walltime 0:10:0
+  $ simfactory/bin/sim submit poisson_test --procs 8 --num-threads 4 --machine=bluewaters-training --walltime 0:10:0
 * follow the standard output of simulation you just created:
-$ simfactory/bin/sim show-output poisson_test --follow --machine=bluewaters-training
+  $ simfactory/bin/sim show-output poisson_test --follow --machine=bluewaters-training
 === Using pyCBC on Bluewaters ===

@@ Line 5: / Line 5: @@
 === Webcast ===
 The school lectures ('''July 31''' to '''August 2''') will be webcast live via Youtube. The link to the webcast will be made available here on the first day of the school and on each successive day.
+<!--
 [[Image:screenlayoutMockUp.png|thumb|none|360px|[http://go.illinois.edu/etk17 Live stream]]]
 <div><ul>
 <li style="display: inline-block;">
 [[Image:2017 North American Einstein Toolkit School - Day 1.mp4.jpg|thumb|left|360px|[https://www.youtube.com/watch?v=jqgEaUjl23I Monday recording] (click on text, not image)]]