e0c4f6925133f1cfad3d2f2ec2b3761ba2800c9b
capsules.md
... | ... | @@ -15,6 +15,8 @@ This environment includes added features for users to manage their software. |
15 | 15 | Older features (such as version selection) are still present but improved. |
16 | 16 | Old scripts should run unaltered and no new commands are required. |
17 | 17 | |
18 | +**Check out Carol Herre's [presentation on Capsules on SBGrid TV](https://www.youtube.com/watch?v=baexe9R128A)** |
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19 | + |
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18 | 20 | ## Getting started |
19 | 21 | |
20 | 22 | You can switch from the legacy SBGrid environment to the new with the *sbcap* command. *sbcap on* will enable the capsule environment. |
client_CLI_install.md
... | ... | @@ -25,6 +25,8 @@ Three software installers are available. Binary releases are available for MacOS |
25 | 25 | |
26 | 26 | The SBGrid installation client requires an individual account. To get started, first, set up an account by registering here : [SBGrid registration](https://sbgrid.org/registration/register/) |
27 | 27 | |
28 | +**Check out [Jason Key's presentation on SBGrid installation tools](https://www.youtube.com/watch?v=sAxIzWhWX5o&t=1s)** |
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29 | + |
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28 | 30 | ### Pre-installation requirements |
29 | 31 | **Admin access required on your computer.** |
30 | 32 | The SBGrid installation client will install the software tree to /opt/sbgrid and create a symlink from this directory to /programs. While admin privileges are not required to run the application, you will need admin privileges to create /opt/sbgrid and /programs . |
client_install.md
... | ... | @@ -36,7 +36,10 @@ A command line version is also available for mac and linux - installation instru |
36 | 36 | **3. Hard Drive Space** |
37 | 37 | Depending on what you install, ensure that you have enough free hard drive space on your machine. |
38 | 38 | |
39 | -**4. For large packages (Phenix, Rosetta, CCP4), a wired connection is recommended.** |
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39 | +**4. XQuartz is required for many graphical applications on MacOS.** |
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40 | + To use many of the graphical applications (COOT, CCP4, nmrDraw, etc), install the latest Xquartz version offered on the [MacOSForge site](https://www.xquartz.org/). |
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41 | + |
|
42 | +**5. For large packages (Phenix, Rosetta, CCP4), a wired connection is recommended.** |
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40 | 43 | Some packages are quite large and can be slow to download, especially over WiFi. |
41 | 44 | |
42 | 45 | ### Download, Installation and activation |
stereo.md
... | ... | @@ -73,9 +73,10 @@ And then this will reload you changes, similar to changing runlevels with sysini |
73 | 73 | |
74 | 74 | |
75 | 75 | Make sure to select MATE from the drop menu as your graphical before you login. |
76 | + |
|
76 | 77 | ## Mac OS X |
77 | 78 | |
78 | -* Prior to OS X 10.8, the stock X11 has better compatibility than the Xquartz development version available from MacOSForge. With the OS X 10.8 release, X11 is no longer included by Apple, and you'll need to install the latest Xquartz version offered on the MacOSForge site to run X11-based applications. |
|
79 | +* X11 is no longer included by Apple, and you'll need to install the latest Xquartz version offered on the [MacOSForge site](https://www.xquartz.org/) to run X11-based applications. |
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79 | 80 | |
80 | 81 | ## Laptops |
81 | 82 |
workstation_setup.md
... | ... | @@ -25,9 +25,8 @@ Packages for RHEL 6, and 7 and compatible machines: |
25 | 25 | `apt-get install libc6-i386 lsb tcsh gawk libjpeg62 curl libx11-6:i386 libxext6:i386` |
26 | 26 | |
27 | 27 | ## Mac OS X |
28 | -Information on configuring 3D stereo can be found [here](stereo) |
|
29 | 28 | |
30 | -* Prior to OS X 10.8, the stock X11 has better compatibility than the Xquartz development version available from MacOSForge. With the OS X 10.8 release, X11 is no longer included by Apple, and you'll need to install the latest Xquartz version offered on the MacOSForge site to run X11-based applications. |
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29 | +* * X11 is no longer included by Apple, and you'll need to install the latest Xquartz version offered on the [MacOSForge site](https://www.xquartz.org/) to run X11-based applications. |
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31 | 30 | |
32 | 31 | ## Laptops |
33 | 32 |