_Sidebar.md
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@@ -22,7 +22,7 @@
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* [[Kirchhuasen at HMS/BCH|bch3-kirchhausen]]
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24 24
##### Other Labs
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-* [[DFCI: Arthanari, Dhe-Paganon Eck, Fischer, Sun, Wang Labs|dfci-eck-fischer-wang-dhepaganon-arthanari-sun]]
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+* [[DFCI: Arthanari, CPD, Dhe-Paganon, Eck, Fischer, Sun, Wang Labs|dfci]]
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* [[Heldwein - Tufts|tufts-heldwein]]
27 27
* [[Miller - MGH|mgh-miller]]
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* [[Wang - Sanofi|sanofi]]
dfci-eck-fischer-wang-dhepaganon-arthanari-sun.md
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1
-<!-- ---title: DFCI: Eck, Dhe-Paganon, Wang, Fischer, Arthanari, & Sun Labs -->
2
-
3
-# Overview
4
-SBGrid provides comprehensive system administration support for all Linux, Windows, and Mac computers at DFCI. Supported labs include Eck, Dhe-Paganon, Wang, Fischer, and Arthanari. All computers are located on an integrated network segment that integrates structural biology computers at HMS, BCH, and DFCI.
5
-
6
-To reach this network for access to local resources from an external location, please ssh to **xtal200.harvard.edu**.
7
-
8
-[[_TOC_]]
9
-
10
-# Get Help
11
-For general questions, email SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and include your name and the name of your lab.
12
-Email questions about your software installation to [bugs@sbgrid.org](mailto:bugs@sbgrid.org).
13
-
14
-New lab members should contact [help@sbgrid.org](mailto:help@sbgrid.org) to complete their initial setup.
15
-
16
-
17
-# Email Access
18
-Lab members have access to a Crystal email account through Google Apps. If you do not have an account, email [help@sbgrid.org](mailto:help@sbgrid.org) and cc your PI in the request.
19
-
20
-SBGrid maintains a Google mailing list for labs on the Crystal Google domain upon request. If your lab actively uses the mailing list and you would like your name added to the list, please contact [help@sbgrid.org](mailto:help@sbgrid.org).
21
-
22
-
23
-# Lab Wiki
24
-
25
-A standalone Confluence server instance (version 5.8) is running on a virtual machine on an SBGrid-hosted VM cluster.
26
-
27
-Users with a crystal email account can access the wiki at the PI’s request.
28
-
29
-To access the lab wiki go to <http://wiki.sbgrid.org> and login with your crystal email.
30
-
31
-# Computers
32
-
33
-### Linux
34
-
35
-Linux computers share authentication and data directories and can only be accessed locally from within the lab.
36
-
37
-Home directories are located at
38
-
39
-* `/nfs/<lab initials>/<username> (example: /nfs/mje/eck)`
40
-
41
-SBGrid's comprehensive collections of structural biology applications is located in the /programs directory. All systems are configured with Stereo 3D.
42
-
43
-The Ivory workstation, which has 48 cores, can be accessed remotely and is typically used for docking computations and data processing.
44
-
45
-Please note that your home directories are only visible to your labmates and PI by default. Permissions vary depending on the
46
-nature of the directory or files in question. PIs can request modifications to file permissions to suit the lab's needs.
47
-
48
-### Mac OS X
49
-
50
-All Mac computers have local administrative accounts that are specific to the lab members. Each user's home directory is located at
51
-
52
-* `/Users/<username> (example /Users/eck)`
53
-
54
-This setup allows users to install and update software without requesting help from SBGrid. Every local account is backed up to CrashPlan.
55
-Any network share, including home directories, are mounted via Samba and require user authentication.
56
-
57
-These computers are also connected to the lab printers on the 3rd and 4th floors of Longwood Center.
58
-
59
-Please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request an account.
60
-
61
-### Windows
62
-
63
-Some lab members use Windows systems as their main computers. These computers are not maintained by SBGrid, however,
64
-SBGrid will make them available on the network.
65
-
66
-
67
-### Data collection and Instrument Control Computers
68
-
69
-The scanner room has two Linux systems (aqua and plum) that control the x-ray scanner. Windows computers on this network are used for
70
-instrument control and data collection for the RockImager and FPLC systems.
71
-
72
-
73
-## Accessing your Samba shares
74
-Macs have local accounts with local home directories. To access your Linux network home directory using Samba (SMB):
75
-
76
-* Open Finder, click Go, then click 'Go to Server'
77
-* Type in the server address: `smb://blacker.in.hwlab`
78
- * Click ‘Connect’.
79
-* Enter your Samba username with @SBGRID.ORG prepended to your username
80
- * E.G. if my user name is jack, I would enter jack@SBGRID.ORG as my username.
81
-* Enter your password (contact SBGrid for SMB account issues)
82
-
83
-
84
-# Data Backups
85
-Hourly and daily snapshots are taken of the file server Z file system. Data is replicated to another server in building C on the HMS Quad.
86
-The local home directories of SBGrid-supported Macs are backed up to a Crashplan server located in the SGM Building on the HMS Quad.
87
-
88
-
89
-# Printing
90
-A Xerox Phaser 8860 is located on the third floor near the kitchen area. Another inkjet printer is located directly above on the fourth floor.
91
-Email [help@sbgrid.org](mailto:help@sbgrid.org) with any printing problems.
92
-
93
-
94
-# RockImager Setup
95
-There are two types of data generated by the imager:
96
-
97
-* Images: Regular “jpg” image files that are stored directly in the file system on the main file server.
98
-* Experimental data: As experiments are created, the data is stored on a “Microsoft SQL Server 2014” database, currently running on a Windows 2012 server.
99
-
100
-The data is accessible on the RockImager PCs and also through the RockMaker software. Formulatrix provides technical support for the instrument and has
101
-remote access for troubleshooting. SBGrid maintains the server configuration.
102
-
103
-## Custom Software
104
-### HKL2000
105
-Licenses for HKL2000 are limited to one specific system per lab. The Eck and Fischer Labs can use either of these systems:
106
-
107
-* mjel6
108
-* mjel12
109
-
110
-# Networking and General IT Support
111
-There are HMS network switches on the 3rd and 4th floors that connect the labs to SBGrid infrastructure. A new port must be
112
-activated for all new SBGrid-supported systems. Email [help@sbgrid.org](mailto:help@sbgrid.org) with the computer information and
113
-port number and SBGrid will work with DFCI/LC IT support to activate the port.
114
-To report DFCI network problems, or for general computing support, contact the Partners Healthcare Help desk at:
115
-
116
-* <http://helpdesk.partners.org/>
117
-
118
-*Note*: this link only works from within the Partners network.
119
-
120
-
121
-
dfci.md
... ...
@@ -0,0 +1,121 @@
1
+<!-- ---title: DFCI: Eck, Dhe-Paganon, Wang, Fischer, Arthanari, & Sun Labs -->
2
+
3
+# Overview
4
+SBGrid provides comprehensive system administration support for all Linux, Windows, and Mac computers at DFCI. Supported labs include Eck, Dhe-Paganon, Wang, Fischer, and Arthanari. All computers are located on an integrated network segment that integrates structural biology computers at HMS, BCH, and DFCI.
5
+
6
+To reach this network for access to local resources from an external location, please ssh to **xtal200.harvard.edu**.
7
+
8
+[[_TOC_]]
9
+
10
+# Get Help
11
+For general questions, email SBGrid at [help@sbgrid.org](mailto:help@sbgrid.org) and include your name and the name of your lab.
12
+Email questions about your software installation to [bugs@sbgrid.org](mailto:bugs@sbgrid.org).
13
+
14
+New lab members should contact [help@sbgrid.org](mailto:help@sbgrid.org) to complete their initial setup.
15
+
16
+
17
+# Email Access
18
+Lab members have access to a Crystal email account through Google Apps. If you do not have an account, email [help@sbgrid.org](mailto:help@sbgrid.org) and cc your PI in the request.
19
+
20
+SBGrid maintains a Google mailing list for labs on the Crystal Google domain upon request. If your lab actively uses the mailing list and you would like your name added to the list, please contact [help@sbgrid.org](mailto:help@sbgrid.org).
21
+
22
+
23
+# Lab Wiki
24
+
25
+A standalone Confluence server instance (version 5.8) is running on a virtual machine on an SBGrid-hosted VM cluster.
26
+
27
+Users with a crystal email account can access the wiki at the PI’s request.
28
+
29
+To access the lab wiki go to <http://wiki.sbgrid.org> and login with your crystal email.
30
+
31
+# Computers
32
+
33
+### Linux
34
+
35
+Linux computers share authentication and data directories and can only be accessed locally from within the lab.
36
+
37
+Home directories are located at
38
+
39
+* `/nfs/<lab initials>/<username> (example: /nfs/mje/eck)`
40
+
41
+SBGrid's comprehensive collections of structural biology applications is located in the /programs directory. All systems are configured with Stereo 3D.
42
+
43
+The Ivory workstation, which has 48 cores, can be accessed remotely and is typically used for docking computations and data processing.
44
+
45
+Please note that your home directories are only visible to your labmates and PI by default. Permissions vary depending on the
46
+nature of the directory or files in question. PIs can request modifications to file permissions to suit the lab's needs.
47
+
48
+### Mac OS X
49
+
50
+All Mac computers have local administrative accounts that are specific to the lab members. Each user's home directory is located at
51
+
52
+* `/Users/<username> (example /Users/eck)`
53
+
54
+This setup allows users to install and update software without requesting help from SBGrid. Every local account is backed up to CrashPlan.
55
+Any network share, including home directories, are mounted via Samba and require user authentication.
56
+
57
+These computers are also connected to the lab printers on the 3rd and 4th floors of Longwood Center.
58
+
59
+Please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request an account.
60
+
61
+### Windows
62
+
63
+Some lab members use Windows systems as their main computers. These computers are not maintained by SBGrid, however,
64
+SBGrid will make them available on the network.
65
+
66
+
67
+### Data collection and Instrument Control Computers
68
+
69
+The scanner room has two Linux systems (aqua and plum) that control the x-ray scanner. Windows computers on this network are used for
70
+instrument control and data collection for the RockImager and FPLC systems.
71
+
72
+
73
+## Accessing your Samba shares
74
+Macs have local accounts with local home directories. To access your Linux network home directory using Samba (SMB):
75
+
76
+* Open Finder, click Go, then click 'Go to Server'
77
+* Type in the server address: `smb://blacker.in.hwlab`
78
+ * Click ‘Connect’.
79
+* Enter your Samba username with @SBGRID.ORG prepended to your username
80
+ * E.G. if my user name is jack, I would enter jack@SBGRID.ORG as my username.
81
+* Enter your password (contact SBGrid for SMB account issues)
82
+
83
+
84
+# Data Backups
85
+Hourly and daily snapshots are taken of the file server Z file system. Data is replicated to another server in building C on the HMS Quad.
86
+The local home directories of SBGrid-supported Macs are backed up to a Crashplan server located in the SGM Building on the HMS Quad.
87
+
88
+
89
+# Printing
90
+A Xerox Phaser 8860 is located on the third floor near the kitchen area. Another inkjet printer is located directly above on the fourth floor.
91
+Email [help@sbgrid.org](mailto:help@sbgrid.org) with any printing problems.
92
+
93
+
94
+# RockImager Setup
95
+There are two types of data generated by the imager:
96
+
97
+* Images: Regular “jpg” image files that are stored directly in the file system on the main file server.
98
+* Experimental data: As experiments are created, the data is stored on a “Microsoft SQL Server 2014” database, currently running on a Windows 2012 server.
99
+
100
+The data is accessible on the RockImager PCs and also through the RockMaker software. Formulatrix provides technical support for the instrument and has
101
+remote access for troubleshooting. SBGrid maintains the server configuration.
102
+
103
+## Custom Software
104
+### HKL2000
105
+Licenses for HKL2000 are limited to one specific system per lab. The Eck and Fischer Labs can use either of these systems:
106
+
107
+* mjel6
108
+* mjel12
109
+
110
+# Networking and General IT Support
111
+There are HMS network switches on the 3rd and 4th floors that connect the labs to SBGrid infrastructure. A new port must be
112
+activated for all new SBGrid-supported systems. Email [help@sbgrid.org](mailto:help@sbgrid.org) with the computer information and
113
+port number and SBGrid will work with DFCI/LC IT support to activate the port.
114
+To report DFCI network problems, or for general computing support, contact the Partners Healthcare Help desk at:
115
+
116
+* <http://helpdesk.partners.org/>
117
+
118
+*Note*: this link only works from within the Partners network.
119
+
120
+
121
+