HMS1-Harrison-Chou-Labs.md
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+<!-- --- title: HMS1 Harrison & Chou Labs-->
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+
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+# Overview
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+
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+At the Harrison and Chou labs at HMS, SBGrid provides a comprehensive system administration support for Linux, Mac, & Windows systems.
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+
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+All SBGrid supported systems are located on an integrated private network segment. To reach this network from an external location please ssh to crystal.harvard.edu, and access your local resources from there.
8
+
9
+If you are a member of the Harrison Lab at CLS please see [[bch1 harrison chen]].
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+
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+# Get Help
12
+Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you are a member of.
13
+
14
+# Email Access
15
+Lab members have access to a Crystal Google Account providing Email and other Google Services, including Google Calendar, Google Drive, Google Docs, Spreadsheet, and more.
16
+To access mail go to the following address and you will be redirected to Gmail:
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+
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+* <http://mail.crystal.harvard.edu>
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+
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+Go to the following address to access Google Calendar:
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+
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+* <http://cal.crystal.harvard.edu>
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+
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+If that doesn't work go to:
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+
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+* <https://mail.google.com/>
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+
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+Login using your username@crystal.harvard.edu Google account.
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+
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+If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
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+
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+[[include:faqs/using-your-crystal-harvard-edu-email-address]]
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+
34
+See [[faqs/using-crystal-google-apps]] for more detailed information on how to use Email, Calendaring.
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+
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+# Email Lists
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+
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+## Harrison Lab
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+
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+The Harrison Lab at SGM has a private Google group for internal communications and for communications from the SBGrid.
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+
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+It's viewable by members on the Web at:
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+
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+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/sch>
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+
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+Members of the list can email it at:
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+
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+* <sch@crystal.harvard.edu>
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+
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+To be added to the list please contact Karen Lee.
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+
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+## Chou Lab
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+
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+The Chou Lab has a private Google group for internal communications and for communications from the SBGrid.
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+
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+It's viewable by members on the Web at:
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+
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+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/jc>
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+
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+Members of the list can email it at:
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+
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+* <jc@crystal.harvard.edu>
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+
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+To be added to the list please seek approval from Professor Chou.
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+
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+
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+# Accounts
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+
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+We have two types of **Crystal** accounts, which can be confusing:
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+
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+* Linux access via ssh to crystal.harvard.edu
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+* Google Account https://crystal.harvard.edu/mail
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+
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+The SBGrid manages both of these, but they are different accounts. The first gives you access to Linux systems in the Lab and the second gives you access to our Crystal Gmail and other Google apps. To make life easier we use the same username for both, but different passwords.
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+
76
+
77
+# Computers
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+The SBGrid support Linux, Mac, and Windows computers in the Harrison & Chou Labs.
79
+
80
+## Linux
81
+Most Linux computers use network accounts, this means that your home directory is on a network storage server and is backed up. If you accidentally delete important files please let us know as soon as possible and we may be able to restore the file for you.
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+
83
+Linux systems have network home directories and access to the SBGrid programs tree (via `/programs`). See this link for information on how to access the software.
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+
85
+## Mac
86
+Currently Mac computers in these labs are a mixture of differing types of network accounts and local accounts. Later this year we will transition all Mac computers away from using network accounts due to the many issues people have with Macs & network accounts.
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+
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+Macs with Local Accounts will have Administrative access to their Macs which will allow them to install and update Software without request that the SBGrid do so for them. Also, the SBGrid Software tree will not be remotely accessible and users will use the SBGrid Installer to install and update Software themselves. These are backed up to Crashplan hosted by HMS. If your Mac is not backed, or you receive warning or messages about Crashplan please contact ASAP as we want to ensure you do not lose any data.
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+
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+## Windows Computers
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+There are Windows Computers used by instruments in the Labs. These should not be used for browsing the Web and if there are any issues please contact the SBGrid as soon as possible. If the SBGrid is not available please contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help), you will need to inform them which building and floor you are located. Do let the SBGrid know that you have contacted HMS-IT so that we can liaise with them.
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+
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+## Data Collection
94
+There is a Mac Mini named bcmp-remotedata-macmini for use in collecting data from beamlines.
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+
96
+Harrison Lab members can share data via this Network directory:
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+/nfs/userdocs/sch/COMMON
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+
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+Chou Lab members can share data via this Network directory:
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+/nfs/userdocs/jc/COMMON
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+
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+### EM Facility
103
+If you need to use the EM Facility in the basement of SGM, please contact [Zongi Li](mailto:zongli_Li@hms.harvard.edu) or [Melissa Chambers](http://liao.hms.harvard.edu/people).
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+
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+If you need a data directory created on the EM systems please email the SBGrid and CC Zongli Li. Please remember that data directories on the EM systems are not backed up and to keep a copy of your data elsewhere.
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+
HMS2-Hogle-Liao-Sliz-Labs.md
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1
+# Overview
2
+The SBGrid provides comprehensive system administration support for all Linux & Mac computers used Hogle, & Sliz labs at HMS, and support for all Linux systems used by the Liao Lab. The Liao Lab should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance with the Mac & Windows systems.
3
+
4
+New SBGrid computers need to be registered to access the network.
5
+
6
+All SBGrid supported systems are located on an integrated private network segment. To reach this network from an external location please ssh to crystal.harvard.edu, and access your local resources from there.
7
+
8
+# Get Help
9
+Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of.
10
+
11
+The Liao lab should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance with the Mac & Windows systems.
12
+
13
+# Email Access
14
+Sliz Lab members have access to Email via a Google Account at hkl.hms.harvard.edu and should not use Crystal Email.
15
+
16
+Holge and Liao Lab members have access to Crystal Google Account providing Email and other services via Google.
17
+
18
+[[include:faqs/using-your-crystal-harvard-edu-email-address]]
19
+
20
+See [[faqs/using-crystal-google-apps]] for more detailed information on how to use Email, Calendaring.
21
+
22
+If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
23
+
24
+# Email Lists
25
+
26
+## Hogle Lab
27
+For Core communications with the Hogle Lab we use a private Google Mailing List.
28
+
29
+It's viewable by members on the Web at:
30
+
31
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/jh>
32
+
33
+Members of the list can email it at:
34
+
35
+* <jh@crystal.harvard.edu>
36
+
37
+
38
+## Liao Lab
39
+For Core communications with the Liao Lab we use a private Google Mailing List.
40
+
41
+It's viewable by members on the Web at:
42
+
43
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/liaolab>
44
+
45
+Members of the list can email it at:
46
+
47
+* <liaolab@crystal.harvard.edu>
48
+
49
+## Sliz Lab
50
+For Core communications with the Liao Lab we use a private Google Mailing List.
51
+
52
+It's viewable by members on the Web at:
53
+
54
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/slizlab>
55
+
56
+However, Sliz lab members should use the HKL Mailings lists for internal communications. These are managed by Professor Sliz.
57
+
58
+These lists are:
59
+
60
+* <all@hkl.hms.harvard.edu>
61
+ * To communication to all members of the Sliz Lab including SBGrid Staff
62
+* <it@hkl.hms.harvard.edu>
63
+ * To communication with SBGrid Staff
64
+
65
+
66
+# Computers
67
+The SBGrid support Linux computers in the Hogle, & Liao Labs, and supports Linux, Mac, & Windows systems in the Sliz Labs.
68
+
69
+## Linux
70
+Most Linux computers use network accounts, this means that your home directory is on a network storage server and is backed up. If you accidentally delete important files please let us know as soon as possible and we may be able to restore the file for you.
71
+
72
+Linux systems have network home directories and access to the SBGrid programs tree (via /programs). See this [link](/wiki/boston-cmcd-faqs-and-discussion/using-sbgrid-programs) for information on how to access the software.
73
+
74
+## Mac
75
+Currently Mac computers in these labs are a mixture of differing types of network accounts and local accounts. Later this year we will transition all Mac computers away from using network accounts due to the many issues people have with Macs & network accounts.
76
+
77
+Macs with Local Accounts will have Administrative access to their Macs which will allow them to install and update Software without request that the SBGrid do so for them. Also, the SBGrid Software tree will not be remotely accessible and users will use the SBGrid Installer to install and update Software themselves.
78
+
79
+## Windows Computers
80
+We help support some Windows systems in the Sliz Lab, however support for these is mainly from [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help). These should not be used for browsing the Web and are should only be used for accessing data if there are any issues please contact the SBGrid or HMS-IT as soon as possible.
81
+
82
+
83
+### EM Facility
84
+If you need to use the EM Facility in the basement of SGM, please contact [Zongi Li](http://hms.harvard.edu/departments/hms-information-technology/get-help) or [Melissa Chambers](http://liao.hms.harvard.edu/people).`
85
+
86
+If you need a data directory created on the EM systems please email the SBGrid and CC Zongli Li. Please remember that data directories on the EM systems are not backed up and to keep a copy of your data elsewhere.
87
+
88
+
89
+
90
+
Home.md
... ...
@@ -21,52 +21,31 @@ The Structural Biology Grid at Harvard Medical School (SBGrid) is a computing co
21 21
See the [SBGrid Website](https://www.sbgrid.org)
22 22
23 23
## Help
24
-* [Getting Help & Support](boston-cmcd-faqs-and-discussion/getting-help)
25
-
26
-## [Lab Support](boston-cmcd-labs-howtos/)
27
-
28
-* [Bradner Lab DFCI](boston-cmcd-labs-howtos/howto-bradner-lab-dfci)
29
-* [D'Souza Lab Harvard University](boston-cmcd-labs-howtos/howto-d-souza-lab-harvard-university)
30
-* Shared Resources for Labs at [Longwood Center labs DFCI](boston-cmcd-labs-howtos/howto-eck-lab-dfci) including:
31
- * Dhe-Paganon Lab
32
- * Eck Lab
33
- * Fischer Lab
34
- * Wang Lab
35
-
36
-* [Gaudet Lab Harvard University](boston-cmcd-labs-howtos/howto-gaudet-lab-harvard-university)
37
-* [Heldwein Lab Tufts Univertsity](howto-heldwein-lab-tufts)
38
-* [Kahne Lab Harvard University](boston-cmcd-labs-howtos/howto-kahne-lab-harvard-university)
39
-* [kirchhausen Lab, BCH](boston-cmcd-labs-howtos/howto-kirchhausen-lab-bch)
40
-* [Leschziner Lab Harvard University](boston-cmcd-labs-howtos/howto-leschziner-lab-harvard-university)
41
-* [Miller Lab MGH](boston-cmcd-labs-howtos/howto-miller-lab-mgh)
42
-* [Sliz Lab Harvard Medical School](boston-cmcd-labs-howtos/howto-sliz-lab)
43
-* [Springer Lab BCH](boston-cmcd-labs-howtos/howto-springer-lab-bch)
44
-* [Dhe-Paganon Lab](boston-cmcd-labs-howtos/howto-structural-biol-core-dhe-paganon-lab-dfci)
45
-* [Wei Lab Genzyme](boston-cmcd-labs-howtos/howto-wei-lab)
46
-* [Wucherpfennig Lab DFCI](boston-cmcd-labs-howtos/howto-wucherpfennig-lab-dfci)
47
-
48
-## [FAQ](boston-cmcd-faqs-and-discussion/)
24
+* [Getting Help & Support](faqs/getting-help)
25
+
26
+
27
+## [FAQ](faqs/)
49 28
Frequently Answered Questions
50 29
51 30
### Account Related
52
-* [Change Your Unix Password](boston-cmcd-faqs-and-discussion/changing-your-account-password)
53
-* [Backups Using Crashplan](boston-cmcd-faqs-and-discussion/crashplan-backups)
54
-* [SBGrid/CMCD VPN](boston-cmcd-faqs-and-discussion/connecting-to-cmcd-vpn)
55
-* [NE CAT Data Collection](boston-cmcd-faqs-and-discussion/data-collection-at-ne-cat)
56
-* [Requesting an Account](boston-cmcd-faqs-and-discussion/new-accounts)
31
+* [Change Your Unix Password](faqs/changing-your-account-password)
32
+* [Backups Using Crashplan](faqs/crashplan-backups)
33
+* [SBGrid/CMCD VPN](faqs/connecting-to-cmcd-vpn)
34
+* [NE CAT Data Collection](faqs/data-collection-at-ne-cat)
35
+* [Requesting an Account](faqs/new-accounts)
57 36
58 37
### Software & Linux/Mac/UNIX
59 38
60
-* [Access Remote Filesystems using SSHFS](boston-cmcd-faqs-and-discussion/sshfs)
61
-* [Firefox Problems on Network Account](boston-cmcd-faqs-and-discussion/troubleshooting-firefox-on-a-network-account)
62
-* [How to Forward Email](boston-cmcd-faqs-and-discussion/forwarding-mail-to-crystal)
63
-* [Linux Remote Access](boston-cmcd-faqs-and-discussion/remote-access-to-linux-computers)
64
-* [OS X (Apple): Find MAC Address](boston-cmcd-faqs-and-discussion/how-to-find-mac-address-on-os-x-gui)
65
-* [Running jobs after you logged off (using Screen)](boston-cmcd-faqs-and-discussion/running-remote-jobs-after-disconnecting)
66
-* [SSH Without a Password](boston-cmcd-faqs-and-discussion/setting-up-passwordless-ssh)
67
-* [SBGrid Software](boston-cmcd-faqs-and-discussion/using-sbgrid-programs)
68
-* [Using Crystal Email](boston-cmcd-faqs-and-discussion/using-your-crystal-harvard-edu-email-address* )
69
-* [Other Resources](boston-cmcd-faqs-and-discussion/other-resources)
39
+* [Access Remote Filesystems using SSHFS](faqs/sshfs)
40
+* [Firefox Problems on Network Account](faqs/troubleshooting-firefox-on-a-network-account)
41
+* [How to Forward Email](faqs/forwarding-mail-to-crystal)
42
+* [Linux Remote Access](faqs/remote-access-to-linux-computers)
43
+* [OS X (Apple): Find MAC Address](faqs/how-to-find-mac-address-on-os-x-gui)
44
+* [Running jobs after you logged off (using Screen)](faqs/running-remote-jobs-after-disconnecting)
45
+* [SSH Without a Password](faqs/setting-up-passwordless-ssh)
46
+* [SBGrid Software](faqs/using-sbgrid-programs)
47
+* [Using Crystal Email](faqs/using-your-crystal-harvard-edu-email-address* )
48
+* [Other Resources](faqs/other-resources)
70 49
71 50
72 51
_Sidebar.md
... ...
@@ -1,14 +1,16 @@
1 1
![SBGrid](./images/sbgrid_small_logo.gif) **[Core Wiki](../Home)**
2 2
3 3
##### Help
4
-* [How To Get Help & Support](boston-cmcd-faqs-and-discussion/getting-help)
5
-* [FAQ](boston-cmcd-faqs-and-discussion/Home)
4
+* [How To Get Help & Support](faqs/getting-help)
5
+* [FAQ](faqs/Home)
6 6
7 7
##### HMS Labs
8
-* [Harrison & Chou Labs at SGM](hms1-sgm-harrison-chou)
9
-* [Hogle, Liao, & Sliz at HMS](hms2-hogle-liao-sliz)
8
+* [[HMS1 Harrison Chou Labs]]
9
+* [[HMS2 Hogle Liao Sliz Labs]]
10 10
* [Blacklow, Kruse, & Rapport at HMS](hms3-blacklow-kruse-rapoport)
11 11
* [Cohen, Corey, & Moazed at HMS](hms4-cohen-corey-moazed)
12
+* [Walker Lab at HMS](hms5-walker)
13
+* [Sorger Lab at HMS](hms6-sorger)
12 14
13 15
#### BCH Labs
14 16
* [Harrison & Chen Labs at BCH](bch1-harrison-chen)
boston-cmcd-labs-howtos/howto-leschziner-lab-harvard-university.md
... ...
@@ -1,4 +1,5 @@
1 1
# HOWTO, Leschziner Lab, Harvard University
2
+Lab Moved and is no longer at HU.
2 3
3 4
## Site Overview
4 5
Members of the Leschziner Lab at Harvard University have access to 10 Linux
faqs/_Sidebar.md
... ...
@@ -0,0 +1,26 @@
1
+![SBGrid](./images/sbgrid_small_logo.gif) **[Core Wiki](../Home)**
2
+
3
+##### Help
4
+* [How To Get Help & Support](/faqs/getting-help)
5
+* [FAQ](/faqs/Home)
6
+
7
+##### HMS Labs
8
+* [Harrison & Chou Labs at SGM](/hms1-sgm-harrison-chou)
9
+* [Hogle, Liao, & Sliz at HMS](/hms2-hogle-liao-sliz)
10
+* [Blacklow, Kruse, & Rapport at HMS](/hms3-blacklow-kruse-rapoport)
11
+* [Cohen, Corey, & Moazed at HMS](hms4-cohen-corey-moazed)
12
+
13
+#### BCH Labs
14
+* [Harrison & Chen Labs at BCH](/bch1-harrison-chen)
15
+* [Wu, Springer, & Hur Labs at CLS](/bch2-wu-springer-hur)
16
+* [Kirchhuasen Lab at HMS/BCH](/bch3-kirchhausen)
17
+* [Gaudet & D'souza Lab at HU/MCB](/hu1-gaudet-dsouza)
18
+
19
+
20
+
21
+
22
+
23
+
24
+
25
+
26
+
faqs/using-your-crystal-harvard-edu-email-address.md
... ...
@@ -20,10 +20,12 @@ Gmail cheat sheet:
20 20
21 21
To configure your address in a client such as Apple's Mail Application or Thunderbird, use the following options:
22 22
23
- * Incoming Mail Server:
23
+ * Incoming Mail Server:
24
+
24 25
* imap.gmail.com
25 26
* SSL enabled using port 993
26 27
* Outgoing Mail Server:
28
+
27 29
* smtp.gmail.com
28 30
* SSL enabled using port 465
29 31
* Username:
hms1-sgm-harrison-chou.md
... ...
@@ -1,68 +0,0 @@
1
-<!-- --- title: HMS1:SGM: Harrison & Chou Labs-->
2
-
3
-# Overview
4
-The Harrison and Chou Labs at HMS are located on the first floor of SGM on the Harvard Medical School Campus.
5
-
6
-# Get Help
7
-Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab your a member of.
8
-
9
-# Email Access
10
-Lab members have access to a Crystal Google Account providing Email and other Google Services, including Google Calendar, Google Drive, Google Docs, Spreadsheet, and more.
11
-To access mail go to the following address and you will be redirected to Gmail:
12
-
13
-* <http://mail.crystal.harvard.edu>
14
-
15
-Go to the following address to access Google Calendar:
16
-
17
-* <http://cal.crystal.harvard.edu>
18
-
19
-If that doesn't work go to:
20
-
21
-* <https://mail.google.com/>
22
-
23
-Login using your username@crystal.harvard.edu Google account.
24
-
25
-If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
26
-
27
-[[include:faqs/using-your-crystal-harvard-edu-email-address]]
28
-
29
-See [[faqs/using-crystal-google-apps]] for more detailed information on how to use Email, Calendaring
30
-
31
-# Accounts
32
-
33
-We have two types of **Crystal** accounts, which can be confusing:
34
-
35
-* Linux access via ssh to crystal.harvard.edu
36
-* Google Account https://crystal.harvard.edu/mail
37
-
38
-The SBGrid manages both of these, but they are different accounts. The first gives you access to Linux systems in the Lab and the second gives you access to our Crystal Gmail and other Google apps. To make life easier we use the same username for both, but different passwords.
39
-
40
-
41
-# Computers
42
-The SBGrid support Linux and Mac computers in the Harrison & Chou Labs.
43
-
44
-## Linux
45
-Most Linux computers use network accounts, this means that your home directory is on a network storage server and is backed up. If you accidentally delete important files please let us know as soon as possible and we may be able to restore the file for you.
46
-
47
-Linux systems have network home directories and access to the SBGrid programs tree (via `/programs`). See this link for information on how to access the software.
48
-
49
-## Mac
50
-Currently Mac computers in these labs are a mixture of differing types of network accounts and local accounts. Later this year we will transition all Mac computers away from using network accounts due to the many issues people have with Macs & network accounts.
51
-
52
-Macs with Local Accounts will have Administrative access to their Macs which will allow them to install and update Software without request that the SBGrid do so for them. Also, the SBGrid Software tree will not be remotely accessible and users will use the SBGrid Installer to install and update Software themselves.
53
-
54
-## Windows Computers
55
-There are a few Windows Computers used by instruments in the Labs. These should not be used for browsing the Web and if there are any issues please contact the SBGrid as soon as possible. If the SBGrid is not available please contact HMS-IT, you will need to inform them which building and floor you are located on.
56
-
57
-## Data Collection
58
-There is Mac Mini named bcmp-remotedata-macmini for use in collecting data from beamlines
59
-
60
-Harrison Lab members can share data via this Network directory:
61
-/nfs/userdocs/sch/COMMON
62
-
63
-Chou Lab members can share data via this Network directory:
64
-/nfs/userdocs/jc/COMMON
65
-
66
-### EM Facility
67
-If you need to use the EM Facility in the basement of SGM, please contact [Zongi Li](mailto:zongli_Li@hms.harvard.edu) or [Melissa Chambers](http://liao.hms.harvard.edu/people).
68
-
hms2-hogle-liao-sliz.md
... ...
@@ -1,44 +0,0 @@
1
-# Overview
2
-The Hogle, Liao, & Sliz Labs are all located on the HMS Campus.
3
-
4
-The [Hogle Lab](https://hogle.med.harvard.edu/) is located on the First Floor of [Building C](https://map.harvard.edu/?ctrx=763409&ctry=2947655&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
5
-
6
-The [Liao Lab](http://liao.hms.harvard.edu/) is located on the Fifth Floor of [SGM](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
7
-
8
-The [Sliz Lab](http://liao.hms.harvard.edu/) is located on the Second Floor of [LHRRB](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
9
-
10
-# Get Help
11
-Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of.
12
-
13
-# Email Access
14
-Sliz Lab members have access to Email via a Google Account at hkl.hms.harvard.edu and should not use Crystal Email.
15
-
16
-Holge and Liao Lab members have access to Crystal Google Account providing Email and other services via Google.
17
-
18
-If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
19
-
20
-# Computers
21
-The SBGrid support Linux and Mac computers in the Hogle, Liao, & Sliz Labs.
22
-
23
-## Linux
24
-Most Linux computers use network accounts, this means that your home directory is on a network storage server and is backed up. If you accidentally delete important files please let us know as soon as possible and we may be able to restore the file for you.
25
-
26
-Linux systems have network home directories and access to the SBGrid programs tree (via /programs). See this [link](/wiki/boston-cmcd-faqs-and-discussion/using-sbgrid-programs) for information on how to access the software.
27
-
28
-## Mac
29
-Currently Mac computers in these labs are a mixture of differing types of network accounts and local accounts. Later this year we will transition all Mac computers away from using network accounts due to the many issues people have with Macs & network accounts.
30
-
31
-Macs with Local Accounts will have Administrative access to their Macs which will allow them to install and update Software without request that the SBGrid do so for them. Also, the SBGrid Software tree will not be remotely accessible and users will use the SBGrid Installer to install and update Software themselves.
32
-
33
-## Windows Computers
34
-We help support some Windows systems in the Sliz Lab, however support for these is mainly from [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help). These should not be used for browsing the Web and are should only be used for accessing data if there are any issues please contact the SBGrid or HMS-IT as soon as possible.
35
-
36
-## Data Collection
37
-N/A
38
-
39
-### EM Facility
40
-If you need to use the EM Facility in the basement of SGM, please contact [Zongi Li](http://hms.harvard.edu/departments/hms-information-technology/get-help) or [Melissa Chambers](http://liao.hms.harvard.edu/people).`
41
-
42
-
43
-
44
-
hms3-blacklow-kruse-rapoport.md
... ...
@@ -1,23 +1,70 @@
1 1
# Overview
2
-The Blacklow, Kruse, & Rapoport Labs are all located on the HMS Campus.
2
+The SBGrid provides comprehensive system administration support for all Linux & Mac computers used by the Blacklow Lab at HMS, and for all Linux systems used by the Kruse & Rapoport Labs.
3 3
4
-The [Blacklow Lab](http://blacklow.hms.harvard.edu/) is located on the Second Floor of [LHRRB](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
4
+The Kruse & Rapoport Labs should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance with Mac & Windows systems.
5 5
6
-The [Kruse Lab](http://kruse.hms.harvard.edu/home) is located on the Second Floor of [SGM](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
6
+New SBGrid computers need to be registered to access the network.
7 7
8
-The [Rapoport](http://rapoport.hms.harvard.edu/) Lab is located on the Sixth Floor of [LHRRB](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
8
+All SBGrid supported systems are located on an integrated private network segment. To reach this network from an external location please ssh to crystal.harvard.edu, and access your local resources from there.
9 9
10 10
11 11
# Get Help
12 12
Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of.
13 13
14
+The Kruse & Rapoport Labs lab should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance with the Mac & Windows systems.
15
+
14 16
# Email Access
15
-Blacklow, Hogle, & Rapoport Lab members have access to Crystal Google Account providing Email and other services via Google. If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
17
+Blacklow, Hogle, & Rapoport Lab members can have access to a Crystal Google Account providing Email and other services via Google. If you do not have an account please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request one and CC your PI in the request.
18
+
19
+However, most Blacklow, Hogle, & Rapoport Lab members use email provided by HMS or Harvard University or other institutions.
20
+
21
+
22
+
23
+# Email Lists
24
+
25
+## Blacklow Lab
26
+For Core communications with the Blacklow Lab at HMS has a private Google group for internal communications and for communications from the SBGrid.
27
+
28
+It's viewable by members on the Web at:
29
+
30
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/sb>
31
+
32
+Members of the list can email it at:
33
+
34
+* <sb@crystal.harvard.edu>
35
+
36
+To join, you must be a member of the Blacklow Lab and have approval from Professor Black or his assistance.
37
+
38
+## Kruse Lab
39
+For Core communications with the Kruse Lab at HMS has a private Google group for internal communications and for communications from the SBGrid.
40
+
41
+It's viewable by members on the Web at:
42
+
43
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/kruselab>
44
+
45
+Members of the list can email it at:
46
+
47
+* <kruselab@crystal.harvard.edu>
48
+
49
+To join, you must be a member of the Kruse Lab and have approval from Professor Kruse.
50
+
51
+## Rapoport Lab
52
+For Core communications with the Rapoport Lab at HMS has a private Google group for internal communications and for communications from the SBGrid.
53
+
54
+It's viewable by members on the Web at:
55
+
56
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/tr>
57
+
58
+Members of the list can email it at:
59
+
60
+* <tr@crystal.harvard.edu>
61
+
62
+To join, you must be a member of the Rapoport Lab and have approval from Professor Rapoport.
63
+
16 64
17 65
# Computers
18
-The SBGrid support Linux in the Blacklow, Kruse, & Rapoport Labs. If you need support for Mac systems or printers, please contact HMS-IT support at:
66
+The SBGrid support Linux computers in the Blacklow, Kruse, & Rapoport Labs, we also support Mac systems for the Blacklow. The Kruse, & Rapoport Labs should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for Mac or Windows support.
19 67
20
-* <http://hms.harvard.edu/departments/hms-information-technology/get-help>
21 68
22 69
## Linux
23 70
Most Linux computers use network accounts, this means that your home directory is on a network storage server and is backed up. If you accidentally delete important files please let us know as soon as possible and we may be able to restore the file for you.
... ...
@@ -25,21 +72,27 @@ Most Linux computers use network accounts, this means that your home directory i
25 72
Linux systems have network home directories and access to the SBGrid programs tree (via /programs). See this link for [information](/wiki/boston-cmcd-faqs-and-discussion/using-sbgrid-programs) on how to access the software.
26 73
27 74
## Mac
28
-We do not support Mac systems in either of these Labs. If your require the SBGrid programs tree installed on a Mac, please email [help@sbgrid.org](mailto:help@sbgrid.org) for assistance.
75
+We currently only support Mac systems for the Blacklow Lab. The Kruse and Rapoport Labs should contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance. If your require the SBGrid programs tree installed on a Mac, please email [help@sbgrid.org](mailto:help@sbgrid.org) for assistance.
76
+
77
+Currently, SBGrid supported Mac computers in these labs are a mixture of differing types of network accounts and local accounts. Later this year we will transition all Mac computers away from using network accounts due to the many issues people have with Macs & network accounts.
78
+
79
+Macs with Local Accounts will have Administrative access to their Macs which will allow them to install and update Software without request that the SBGrid do so for them. Also, the SBGrid Software tree will not be remotely accessible and users will use the SBGrid Installer to install and update Software themselves. These are backed up to Crashplan hosted by HMS. If your Mac is not backed, or you receive warning or messages about Crashplan please contact ASAP as we want to ensure you do not lose any data.
80
+
81
+Please make sure to contact the SBGrid to us determine if Crashplan Backup software should be installed on your Mac.
29 82
30
-## Instruments Computers
31
-We support Instruments systems in the Blacklow Lab in conjunction with HMS-IT. Contact the SBGrid for support and help.
32 83
33
-We use HMS Crashplan to backup these systems. If you are installing a new instrument, please let us know in advance so we can assist with setup and ensure backups are enabled and working.
84
+## Blacklow Instruments Computers
85
+Brandon Zimmerman and Tom Seegar of the Blacklow Lab support Windows Instruments systems in the Blacklow Lab. The SBGrid is available for support and help, at the weekend if the SBGrid is unavailable contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help).
86
+
87
+HMS Crashplan should be used to backup any of these systems that are on the network. If you are installing a new instrument, please let us know in advance so we can assist with setup if required and so that we ensure backups are enabled and working. Systems that are not on the network should have their harddrive cloned so that the system can be restored in case of a disasterous hard-drive failure.
88
+
89
+These systems should not be used for browsing the Web and if there are any issues please contact the SBGrid as soon as possible. Please make sure to contact the SBGrid to have Crashplan Backup software installed on any of your instrument PC's.
34 90
35
-These should not be used for browsing the Web and if there are any issues please contact the SBGrid as soon as possible.
36
-## Data Collection
37
-N/A
38 91
39 92
### EM Facility
40 93
If you need to use the EM Facility in the basement of SGM, please contact [Zongi Li](http://hms.harvard.edu/departments/hms-information-technology/get-help) or [Melissa Chambers](http://liao.hms.harvard.edu/people).`
41 94
42
-
95
+If you need a data directory created on the EM systems please email the SBGrid and CC Zongli Li. Please remember that data directories on the EM systems are not backed up and to keep a copy of your data elsewhere.
43 96
44 97
45 98
hms4-cohen-corey-moazed.md
... ...
@@ -1,43 +1,85 @@
1 1
# Overview
2
-The Cohen, Corey, & Moazed Labs are all located on the HMS Campus.
2
+The SBGrid provides system administration support for SBGrid supported Linux Computers used by the Cohen, Corey, & Moazed Labs.
3 3
4
-The [Cohen Lab](http://www.hms.harvard.edu/bss/neuro/cohen/) is located on the third floor of [WAB](http://map.harvard.edu/?ctrx=763565.5&ctry=2947781&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
4
+The Corey Lab has one Linux workstation that is administered by the SBGrid. The Cohen Lab also has one Linux workstation that is administered by the SBGrid. The Moazed Lab has two linux workstations that are administered by the [West Quad Computing Group](http://wqcg.med.harvard.edu/) and SBGrid Software support from the SBGrid.
5 5
6
-The [Corey Lab](http://corey.med.harvard.edu/index.html) is located on the Sixth Floor of [WAB](https://map.harvard.edu/?ctrx=763566&ctry=2947781&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
7
-
8
-The [Moazed Lab](https://map.harvard.edu/?ctrx=763566&ctry=2947781&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text) is located on the Fifth Floor of [LHRRB](https://map.harvard.edu/?ctrx=762947&ctry=2947746&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
6
+All of these systems are on the HMS Network.
9 7
10 8
11 9
# Get Help
12
-Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of.
10
+Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) for Linux assistance and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of. The Moazed Lab should CC [West Quad Computing Group](http://wqcg.med.harvard.edu/) on any emails to the SBGrid.
11
+
12
+For all other IT assistance please contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help).
13
+
14
+# Email Lists
15
+
16
+We have email lists for Core Communications with the Cohen, Corey, & Moazed Labs.
17
+
18
+## Cohen Lab
19
+The Cohen Lab mailing list is viewable at:
20
+
21
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/cohenlab>
22
+
23
+Members of the list can email it at:
24
+
25
+* <coreylab@crystal.harvard.edu>
26
+
27
+## Corey Lab
28
+The Corey Lab mailing list is viewable at:
29
+
30
+It's viewable by members on the Web at:
31
+
32
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/coreylab>
33
+
34
+Members of the list can email it at:
35
+
36
+* <cohenlab@crystal.harvard.edu>
37
+
38
+## Moazed Lab
39
+The Mozaed Lab mailing list is viewable at:
40
+
41
+It's viewable by members on the Web at:
42
+
43
+* <https://groups.google.com/a/crystal.harvard.edu/forum/#!forum/moazed-lab>
44
+
45
+Members of the list can email it at:
46
+
47
+* <moazed-lab@crystal.harvard.edu>
13 48
14 49
15 50
# Computers
16
-The SBGrid support Linux systems in the Cohen, Corey, & Mozaed Labs. If you need support for Mac systems or printers, please contact HMS-IT support at:
51
+The SBGrid support Linux systems in the Cohen, Corey, & Mozaed Labs. If you need support for Mac or Windows systems, or printers, please contact HMS-IT support at:
17 52
18 53
* <http://hms.harvard.edu/departments/hms-information-technology/get-help>.
19 54
20 55
## Cohen Lab
21 56
The SBGrid currently supports one Linux GPU Workstation in the Cohen Lab. This is accessible from the HMS Network and is not accessible from the SBGrid Network. This does not have a network account and the Lab uses a shared user account.
22 57
58
+This Workstations Workstation is used primarily for running Schrodinger and has a 3TB mirrored /data filesystem.
59
+
60
+TODO: Need to determine how this system is backed up.
61
+
23 62
## Corey Lab
24
-The SBGrid currently supports one Linux GPU Workstation in the Cohen Lab. This is accessible from the HMS Network and is not accessible from the SBGrid Network. This does not have a network account and the Lab uses a shared user account and individual accounts can be created upon request.
63
+The SBGrid currently supports one Linux GPU Workstation in the Cohen Lab. This is accessible from the HMS Network and is not accessible from the SBGrid Network. This does not have a network account and users can either use a shared account or we can created individual accounts as needed. Please contact Nurunisa Akyuz or [Professor David Corey](http://corey.med.harvard.edu/) for access.
25 64
26
-Data in /data and home directories are backed up daily to Dropbox.
65
+Data in /data and home directories are backed up daily to Dropbox, contact the SBGrid to have files restored.
27 66
28 67
## Moazed Lab
29
-In the Moazed Lab there are currently two Linux Workstations. These are primarily supported by the [West Quad Computing Group](http://wqcg.med.harvard.edu/) (WQCG). Support from WQCG is available via:
68
+In the Moazed Lab there are currently two Linux Workstations. These are primarily supported by the [West Quad Computing Group](http://wqcg.med.harvard.edu/) (WQCG).
69
+
70
+Support from WQCG is available via:
30 71
31 72
* <http://wqcg.med.harvard.edu/support>
32 73
74
+Backups are provided by WQCG.
33 75
34 76
## Mac
35
-We do not support Mac systems in either of these Labs. If your require the SBGrid programs tree installed on a Mac, please email [help@sbgrid.org](mailto:help@sbgrid.org) for assistance. Otherwise, contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for assistance.
77
+We do not support Mac systems in these Labs. If your require the SBGrid programs tree installed on a Mac, please email [help@sbgrid.org](mailto:help@sbgrid.org) for assistance. Otherwise, contact [HMS-IT](http://hms.harvard.edu/departments/hms-information-technology/get-help) for IT Support.
36 78
37
-## Data Collection
38
-N/A
39 79
40 80
### EM Facility
41 81
If you need to use the EM Facility in the basement of SGM, please contact Zongi Li or Melissa Chambers.
42 82
83
+If you need a data directory created on the EM systems please email the SBGrid and CC Zongli Li. Please remember that data directories on the EM systems are not backed up and to keep a copy of your data elsewhere.
84
+
43 85
hms5-walker.md
... ...
@@ -2,17 +2,16 @@
2 2
As a HMS Structural Biology Lab the SBGrid provides system administration support for Linux Computers used by the Walker Lab.
3 3
4 4
# Get Help
5
+<<<<<<< HEAD
5 6
Email the SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and please include the name of your Lab as we get many emails each day and don’t always know what Lab you're a member of.
6 7
7 8
For support with SBGrid software please email [bugs@sbgrid.org](mailto:bugs@sbgrid.org).
8 9
9 10
# Computers
10
-The SBGrid support Linux systems in the Walker Lab. If you need support for Mac systems or printers, please contact HMS-IT support at:
11
-http://hms.harvard.edu/departments/hms-information-technology/get-help
11
+The SBGrid supports Linux systems in the Walker Lab. If you need support for Mac systems or printers, please contact HMS-IT support at:
12
+
13
+* <http://hms.harvard.edu/departments/hms-information-technology/get-help>
12 14
13 15
## Linux
14 16
We don’t have any Linux systems on record.
15 17
16
-
17
-
18
-
hms6-sorger.md
... ...
@@ -1,4 +1,5 @@
1 1
# Overview
2
+<<<<<<< HEAD
2 3
The [Sorger Lab](http://sorger.med.harvard.edu/ ) is located on the HMS Campus on the fourth floor of [WAB](https://map.harvard.edu/?ctrx=763566&ctry=2947781&level=9&layers=Campus%20Base%20and%20Buildings,Map%20Text).
3 4
4 5
# Get Help
... ...
@@ -19,7 +20,3 @@ We don’t have any Linux systems on record.
19 20
We do not support Mac systems in the Sorger Lab.
20 21
21 22
If your require the SBGrid programs tree installed on a Mac, please email [help@sbgrid.org](mailto:help@sbgrid.org) for assistance.
22
-
23
-
24
-
25
-
hu1-gaudet-dsouza.md
... ...
@@ -1,17 +1,20 @@
1 1
# Overview
2
-At MCB, SBGrid provides a comprehensive system administration support for all Linux computers. Supported labs include the Gaudet and D’souza labs.
3
-All computers are located on a virtual local area network supported by Harvard research computing on the Cambridge campus
4
-To reach this network from an external location please ssh to galactica.mcb.harvard.edu, and access your local resources from there.
2
+At MCB SBGrid provides comprehensive system administration support for all Linux computers. Supported labs include the Gaudet and D’Souza labs.
3
+
4
+All computers are connected to a private section of the Harvard network.
5
+
6
+To reach this network from an external location please ssh to **galactica.mcb.harvard.edu**, and access your local resources from there.
5 7
6 8
# Get Help
7
-To request support please contact [help@sbgrid.org](mailto:help@sbgrid.org). For support with software installation please email [bugs@sbgrid.org](mailto:bugs@sbgrid.org). New members joining the lab should contact help@sbgrid.org as well to complete the initial setup.
9
+
10
+To request support please contact [help@sbgrid.org](mailto:help@sbgrid.org). For support with software installation please email [bugs@sbgrid.org](mailto:bugs@sbgrid.org). New members joining the lab should contact help@sbgrid.org as well to complete the initial setup. Networking is supported by FAS Research Computing on the Cambridge campus.
8 11
9 12
# Computers
10 13
11 14
## Setup on Linux Computers
12 15
The Linux computers share authentication and data directories and can be only accessed locally from within the lab. Home directories are located at `/labdata/<lab initials>/<username>` (example: `/labdata/vdg/testname`). A comprehensive collections of SBGrid applications is located at the /programs directory. Some systems are configured with Stereo 3D. Pioneer contains a license for running HKL2000.
13 16
14
-In addition, **cerberus** which is a 64 cores 2 node computer cluster running OpenLava can be accessed remotely and is typically used for docking computations and data processing. To access it, ssh to **galactica.mcb.harvard.edu**
17
+In addition, **cerberus** which is a 64 cores 2 node computer cluster running OpenLava and can be accessed remotely and is typically used for docking computations and data processing. To access it, ssh to **galactica.mcb.harvard.edu**.
15 18
16 19
Please note that your home directories are only visible to your labmates and PI by default. Permissions vary depending on the nature of the directory or files in questions. PI’s should discuss file permissions with SBGrid to suit their needs.
17 20