Commit a3259c2e authored by joshcarini's avatar joshcarini
Browse files

removed xsede and swc pages. replaced html code with markdown equivalents

parent 249e7a79
......@@ -18,7 +18,7 @@ Materials
Etherpad: no longer supported
Software Carpentry
Lessons: <a href="https://eharstad.github.io/2016-09-08-UNL/" class="external-link">https://eharstad.github.io/2016-09-08-UNL/</a>
Lessons: [https://eharstad.github.io/2016-09-08-UNL/](https://eharstad.github.io/2016-09-08-UNL/)
Slides for Thursday intro:
......
......@@ -9,7 +9,7 @@ Where:  NIC Food Innovation Campus room 277
             1901 N. 21st St., Lincoln, 68588
<a href="https://hcc.unl.edu/hcc-qiime-workshop" class="external-link">Details and Agenda</a>
[Details and Agenda](https://hcc.unl.edu/hcc-qiime-workshop)
------------------------------------------------------------------------
......@@ -20,7 +20,7 @@ Slides for morning
introduction: [QIIME\_2016\_intro.pdf](https://unl.box.com/s/d2o92uoar7x59a7rxl0f3y7o3ncy0swq)
Software Carpentry Unix Shell
Lessons: <a href="http://eharstad.github.io/shell-novice/" class="external-link">http://eharstad.github.io/shell-novice/</a>
Lessons: [http://eharstad.github.io/shell-novice/](http://eharstad.github.io/shell-novice/)
Slides for HCC
Overview: [2016\_Qiime.pdf](https://unl.box.com/s/4gryu7ny8lo95fs8clyu566k2ubbhtef)
......@@ -29,7 +29,7 @@ QIIME
slides: [QIIME\_Talk\_Oct20.pdf](https://unl.box.com/s/h4zi0h27t1t16u9due3ybfrxmsdebzin)
QIIME
tutorial: <a href="http://bioinformatics.unl.edu/qiime_tutorial.pdf" class="external-link">http://bioinformatics.unl.edu/qiime_tutorial.pdf</a><a href="http://bioinformatics.unl.edu/qiime_tutorial.pdf" class="external-link"></a>
tutorial: [http://bioinformatics.unl.edu/qiime_tutorial.pdf](http://bioinformatics.unl.edu/qiime_tutorial.pdf)
------------------------------------------------------------------------
......@@ -40,7 +40,7 @@ tutorial: <a href="http://bioinformatics.unl.edu/qiime_tutorial.pdf" class="ext
--------------------------------------------------------------------------------------------------------------------------------------------------------------
1. To participate in this workshop, you will need to
<a href="http://hcc.unl.edu/new-user-request" class="external-link">sign up for an HCC account</a>
[sign up for an HCC account](http://hcc.unl.edu/new-user-request)
(if you do not already have one). Please complete the account
application and [DUO two-factor authentication
setup](https://hcc-docs.unl.edu/display/HCCDOC/Setting+up+and+using+Duo)
......@@ -55,17 +55,17 @@ tutorial: <a href="http://bioinformatics.unl.edu/qiime_tutorial.pdf" class="ext
and [Mac/Linux
Users](https://hcc.unl.edu/docs/quickstarts/connecting/for_maclinux_users/).
If you have any problems logging in, please email us at
<a href="mailto:hcc-support@unl.edu" class="external-link">hcc-support@unl.edu</a>.
[hcc-support@unl.edu](mailto:hcc-support@unl.edu)
3. On Thursday we will be demonstrating how to transfer files using
Globus Connect. Before arriving at the workshop, please log in to
the
<a href="https://www.globus.org/app/transfer" class="external-link">Globus Web App</a>
[Globus Web App](https://www.globus.org/app/transfer)
using your My.UNL credentials (choose *University of
Nebraska-Lincoln* from the drop down menu).  Next, install the
Globus Connect Personal app on your laptop (directions for
<a href="https://docs.globus.org/how-to/globus-connect-personal-mac/" class="external-link">Mac OS X</a>,
<a href="https://docs.globus.org/how-to/globus-connect-personal-linux/" class="external-link">Linux</a>,
[Mac OS X](https://docs.globus.org/how-to/globus-connect-personal-mac/),
[Linux](https://docs.globus.org/how-to/globus-connect-personal-linux/),
and
<a href="https://docs.globus.org/how-to/globus-connect-personal-windows/" class="external-link">Windows</a>)
[Windows](https://docs.globus.org/how-to/globus-connect-personal-windows/)
so that you can begin using Globus to transfer data to and from your
laptop.
......@@ -5,10 +5,6 @@ description = "HCC Spring Workshop UNO 2016."
**When**: 12:30 pm - 15:00 pm, March 11, 2016
**Where**:  <span style="color: rgb(91,91,90);">UNO, Criss Library Room
249</span>
**Quick
Link**<a href="http://jingchaozhang.github.io/2016-03-11-UNO/" class="external-link">http://jingchaozhang.github.io/2016-03-11-UNO/</a>
**Where**: UNO, Criss Library Room 249
**Quick Link**[http://jingchaozhang.github.io/2016-03-11-UNO/](http://jingchaozhang.github.io/2016-03-11-UNO/)
\ No newline at end of file
......@@ -3,7 +3,9 @@ title = "Instructions for 5/20/16 Allinea Workshop"
description = "Instructions for 5/20/16 Allinea Workshop."
+++
<span style="color: rgb(0,0,0);">When: May 20th, 1-2:30PM</span> <span style="color: rgb(0,0,0);">Where: UNL AVH 347 and UNO PKI 250</span>
When: May 20th, 1-2:30PM
------------------------------------------------------------
Where: UNL AVH 347 and UNO PKI 250
-------------------------------------------------------------------------------------------------------------------------------------------
### Untar the files for the examples
......@@ -34,20 +36,16 @@ these instructions to setup the Allinea client on your laptop.
First, download and install the remote client software for either
Windows or OS X
from <a href="https://www.allinea.com/products/forge/download#remote-client" class="external-link">this page</a>.
from [this page](https://www.allinea.com/products/forge/download#remote-client).
Start the Allinea software, and choose *Configure...* from the *Remote
Launch* dropdown menu.
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/configure.png" class="confluence-embedded-image confluence-content-image-border" width="300" height="78" /></span>
{{< figure src="/images/configure.png" width="300" height="78" class="img-border">}}
Click the *Add* button on the new window.
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/add.png" class="confluence-embedded-image confluence-content-image-border" width="400" height="322" /></span>
{{< figure src="/images/add.png" width="400" height="322" class="img-border">}}
To setup a connection to Crane, fill in the fields as follows:
*Connection Name:  *Crane
......@@ -56,8 +54,7 @@ To setup a connection to Crane, fill in the fields as follows:
It should appear similar to this:
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/filledfields.png" class="confluence-embedded-image confluence-content-image-border" width="500" height="306" /></span>
{{< figure src="/images/filledfields.png" width="500" height="306" class="img-border">}}
Be sure to replace *demo02* with your HCC username.
......@@ -81,13 +78,11 @@ ln -s $WORK/.allinea $HOME/.allinea
To test the connection, choose *Crane* from the *Remote Launch* menu.
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/remoteLaunch.png" class="confluence-embedded-image confluence-content-image-border" width="300" height="114" /></span>
{{< figure src="/images/remoteLaunch.png" width="300" height="114" class="img-border">}}
A* Connect to Remote Host* dialog will appear and prompt for a password.
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/password.png" class="confluence-embedded-image confluence-content-image-border" width="500" height="310" /></span>
{{< figure src="/images/password.png" width="500" height="310" class="img-border">}}
The login procedure is the same as for PuTTY or any other SSH program.
 Enter your HCC password followed by the Duo login.
......@@ -119,14 +114,12 @@ ddt --connect
On your local machine, a pop-up box should appear prompting you to
accept the Reverse Connect request.
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/reverse.png" class="confluence-embedded-image confluence-content-image-border" width="450" /></span>
{{< figure src="/images/reverse.png" width="450" class="img-border">}}
Choose *Accept.*  The *Remote Launch *section should change to indicate
you are connected via tunnel, similar to:
<span
class="confluence-embedded-file-wrapper confluence-embedded-manual-size"><img src="/images/tunnel.png" class="confluence-embedded-image confluence-thumbnail confluence-content-image-border" width="250" /></span>
{{< figure src="/images/tunnel.png" width="250" class="img-border">}}
Once that happens, Reverse Connect is working successfully and a
debugging or profiling session can be started.
......
+++
title = "OSG Workshop UNL 2016"
description = "OSG Workshop UNL 2016."
+++
**When**: January 6-8, 2016
**Where**:  UNL Campus, Avery Hall 119
**Quick
Link**<a href="https://swc-osg-workshop.github.io/2016-01-06-UNL/" class="external-link">https://swc-osg-workshop.github.io/2016-01-06-UNL/</a>
**Materials**
=============
**Etherpad**: no longer supported
**Shell
Lesson**<a href="http://swc-osg-workshop.github.io/2016-01-06-UNL/novice/shell/" class="external-link">http://swc-osg-workshop.github.io/2016-01-06-UNL/novice/shell/</a>
**Git
Lesson**<a href="https://eharstad.github.io/git-novice/" class="external-link">https://eharstad.github.io/git-novice/</a>
**Python
Lesson**<a href="https://djw8605.github.io/python-novice-inflammation/" class="external-link">https://djw8605.github.io/python-novice-inflammation/</a>
**Open Science Grid
Lesson**<a href="http://swc-osg-workshop.github.io/2016-01-06-UNL/novice/DHTC/" class="external-link">http://swc-osg-workshop.github.io/2016-01-06-UNL/novice/DHTC/</a>
+++
title = "SWC Workshop, July 14-15, 2016"
description = "SWC Workshop, July 14-15, 2016."
+++
**When**: July 14-15, 2016
**Where**: UNO Campus, PKI 160
**Quick
Link**<a href="https://npavlovikj.github.io/2016-07-14-UNO/" class="external-link">https://npavlovikj.github.io/2016-07-14-UNO/</a>
**Materials**
=============
**Etherpad**: no longer supported
**Shell Lesson**: <span
style="color: rgb(24,54,145);"><a href="http://swcarpentry.github.io/shell-novice/" class="external-link">http://swcarpentry.github.io/shell-novice/</a></span>
**Git Lesson**: <span
style="color: rgb(24,54,145);"><a href="http://swcarpentry.github.io/shell-novice/" class="external-link">http://swcarpentry.github.io/git-novice/</a></span>
**HCC Lesson**: [pdf](https://unl.box.com/s/p5mpahszbu4mwnxas3xzgc6e4ypnthja)
**MatLab Demo**: [matlab](https://unl.box.com/s/z9ihn225txqt7s6xx3d0mfj9o5q6jc7h)
**Python Lesson**: <span
style="color: rgb(24,54,145);"><a href="https://djw8605.github.io/python-novice-inflammation/" class="external-link">https://djw8605.github.io/python-novice-inflammation/</a></span>
+++
title = "XSEDE Big Data, Nov. 2016"
description = "XSEDE Big Data, Nov. 2016."
+++
When:   November 1st, 2016
Where:  Hardin Hall 901, UNL East Campus
             3310 Holdrege St., Lincoln, 68583
<a href="http://hcc.unl.edu/xsede-hpc-workshop-big-data" class="external-link">Details</a><a href="https://portal.xsede.org/course-calendar/-/training-user/class/518/session/1096" class="external-link"></a>
Etherpad (no longer supported)
------------------------------------------------------------------------
Materials
---------
| Agenda |   |
|--------|------------------------------------------------------------------------------------------------------------------------------------------------|
| 10:00 | Welcome |
| 10:25 | Intro to Big Data |
| 10:45 | Hadoop |
| 12:00 | Lunch break |
| 1:00 | Spark intro |
| 3:15 | A Big Big Data Platform |
| 4:00 | Adjourn |
+++
title = "XSEDE OpenACC, Dec. 2016"
description = "XSEDE OpenACC, Dec. 2016."
+++
When:   December 6th, 2016
Where:  Animal Science C210, UNL East Campus
            3940 Fair St., Lincoln, 68583
<a href="https://hcc.unl.edu/xsede-hpc-workshop-openacc" class="external-link">Details</a>
<a href="https://unl.box.com/s/cmz1xchbm3irqnbr0gro9ndnpyjvngwa" class="external-link">Exercises</a>
Etherpad (no longer supported)
 
------------------------------------------------------------------------
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