eb3f3c6ffbfc8c5f8d6675d70051b57dbc02f684
dfci-eck-fischer-wang-dhepaganon-arthanari.md
... | ... | @@ -19,7 +19,8 @@ Lab members have access to a Crystal email account through Google Apps. If you d |
19 | 19 | 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). |
20 | 20 | |
21 | 21 | |
22 | -#Lab Wiki |
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22 | +# Lab Wiki |
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23 | + |
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23 | 24 | A standalone Confluence server instance (version 5.8) is running on a virtual machine on an SBGrid-hosted VM cluster. |
24 | 25 | |
25 | 26 | Users with a crystal email account can access the wiki at the PI’s request. |
... | ... | @@ -28,12 +29,15 @@ To access the lab wiki go to <http://wiki.sbgrid.org> and login with your crysta |
28 | 29 | |
29 | 30 | # Computers |
30 | 31 | |
31 | -###Linux |
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32 | +### Linux |
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32 | 33 | |
33 | 34 | Linux computers share authentication and data directories and can only be accessed locally from within the lab. |
34 | 35 | |
35 | -Home directories are located at `/nfs/<lab initials>/<username> (example: /nfs/mje/eck)`. SBGrid's comprehensive collections of |
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36 | -structural biology applications is located at the /programs directory. All systems are configured with Stereo 3D. |
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36 | +Home directories are located at |
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37 | + |
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38 | +* `/nfs/<lab initials>/<username> (example: /nfs/mje/eck)` |
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39 | + |
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40 | +SBGrid's comprehensive collections of structural biology applications is located in the /programs directory. All systems are configured with Stereo 3D. |
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37 | 41 | |
38 | 42 | The Ivory workstation, which has 48 cores, can be accessed remotely and is typically used for docking computations and data processing. |
39 | 43 | |
... | ... | @@ -42,22 +46,27 @@ nature of the directory or files in question. PIs can request modifications to f |
42 | 46 | |
43 | 47 | ### Mac OS X |
44 | 48 | |
45 | -All Mac computers have local administrative accounts that are specific to the lab members. Each user's home directory is located at |
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46 | -`/Users/<username> (example /Users/eck)`. This setup allows users to install and update software without requesting help from SBGrid. |
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47 | -Every local account is backed up to CrashPlan. Any network share, including home directories, are mounted via Samba and require user authentication. |
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49 | +All Mac computers have local administrative accounts that are specific to the lab members. Each user's home directory is located at |
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48 | 50 | |
49 | -Please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request an account. |
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51 | +* `/Users/<username> (example /Users/eck)` |
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52 | + |
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53 | +This setup allows users to install and update software without requesting help from SBGrid. Every local account is backed up to CrashPlan. |
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54 | +Any network share, including home directories, are mounted via Samba and require user authentication. |
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50 | 55 | |
51 | 56 | These computers are also connected to the lab printers on the 3rd and 4th floors of Longwood Center. |
52 | 57 | |
58 | +Please contact [help@sbgrid.org](mailto:help@sbgrid.org) to request an account. |
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59 | + |
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53 | 60 | ### Windows |
54 | 61 | |
55 | -Some lab members use Windows systems as their main computers. These computers are not maintained by SBGrid, however, SBGrid will make them available on the network. |
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62 | +Some lab members use Windows systems as their main computers. These computers are not maintained by SBGrid, however, |
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63 | +SBGrid will make them available on the network. |
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56 | 64 | |
57 | 65 | |
58 | 66 | ### Data collection and Instrument Control Computers |
59 | 67 | |
60 | -The scanner room has two Linux systems (aqua and plum) that control the x-ray scanner. Windows computers on this network are used for instrument control and data collection for the RockImager and FPLC systems. |
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68 | +The scanner room has two Linux systems (aqua and plum) that control the x-ray scanner. Windows computers on this network are used for |
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69 | +instrument control and data collection for the RockImager and FPLC systems. |
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61 | 70 | |
62 | 71 | |
63 | 72 | ## Accessing your Samba shares |
... | ... | @@ -70,11 +79,13 @@ Macs have local accounts with local home directories. To access your Linux netwo |
70 | 79 | |
71 | 80 | |
72 | 81 | # Data Backups |
73 | -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. The local home directories of SBGrid-supported Macs are backed up to a Crashplan server located in the SGM Building on the HMS Quad. |
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82 | +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. |
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83 | +The local home directories of SBGrid-supported Macs are backed up to a Crashplan server located in the SGM Building on the HMS Quad. |
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74 | 84 | |
75 | 85 | |
76 | 86 | # Printing |
77 | -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. Email [help@sbgrid.org](mailto:help@sbgrid.org) with any printing problems. |
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87 | +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. |
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88 | +Email [help@sbgrid.org](mailto:help@sbgrid.org) with any printing problems. |
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78 | 89 | |
79 | 90 | |
80 | 91 | # RockImager Setup |
... | ... | @@ -83,7 +94,8 @@ There are two types of data generated by the imager: |
83 | 94 | * Images: Regular “jpg” image files that are stored directly in the file system on the main file server. |
84 | 95 | * Experimental data: As experiments are created, the data is stored on a “Microsoft SQL Server 2014” database, currently running on a Windows 2012 server. |
85 | 96 | |
86 | -The data is accessible on the RockImager PCs and also through the RockMaker software. Formulatrix provides technical support for the instrument and has remote access for troubleshooting. SBGrid maintains the server configuration. |
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97 | +The data is accessible on the RockImager PCs and also through the RockMaker software. Formulatrix provides technical support for the instrument and has |
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98 | +remote access for troubleshooting. SBGrid maintains the server configuration. |
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87 | 99 | |
88 | 100 | # Networking and General IT Support |
89 | 101 | There are HMS network switches on the 3rd and 4th floors that connect the labs to SBGrid infrastructure. A new port must be |