HOWTO, Longwood Center labs, DFCI

This is an old wiki page and is out-of-date. It's been retained as some of this information may still be useful. ## Site Overview:

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  • Eck
  • Dhe-Paganon
  • Wang
  • Fischer

Members of these labs at the Dana Farber Cancer Institute have access to several shared Linux and Mac computers running a large collection of structural biology software. The Linux computers share authentication and data directories and can be only accessed locally from within the lab.

Linux computers are located in the graphics room (fish bowl) on the third floor and in cubicles on the fourth floor. The X-ray room has two workstations for data acquisition. Macs are located on lab member’s desks.

All linux machines are configured for Stereo 3D output.

Research Computing support is provided by SBGrid - contact them here .

Shared Workstations: (see below)

Mac Workstations: (see below)

Home and Data Directories:

Linux systems:

NFS mounted home directories: /nfs/<PI initials>/<username>

NFS mounted synchrotron data:** /synchrotron**

NFS read only mounted programs tree: /programs

On Mac systems:

NFS read only mounted home directories: /nfs/<PI initials>/<username>

NFS read only mounted synchrotron data: /synchrotron

NFS read only mounted programs tree: /programs

SMB read and write mounted home directory:

To mount your home directory using Samba (SMB):

- In Finder, click Go then click 'Go to Server'

- Type in server address: smb://blacker.in.hwlab

- Enter your SMB username and password. (contact SBGrid for SMB account issues)

To change your SMB password, use this command on a linux system:

  1. smbpasswd -R blacker.in.hwlab -U <username>

Data Backups:

Fileserver data is snapshotted and also replicated to another server at HMS/C building. Local iMac accounts are backed up using crashplan.

Printing:

A Xerox Phaser 8860 is located in the third floor near the kitchen area. Another inkJet printer is located directly above on the fourth floor. If you are having issues with printing, please contact SBGrid here.

X-Ray Data Collection:

Plum and Aqua are workstations designated for data collection, and are located in the X-Ray room on the third floor. These machines have custom local software installs to interact with the Marresearch scanner.

HKL2000 can be accessed and run on Plum, Aqua, mjel14 and sdp2.

Please contact Mike Eck to obtain guest privileges.

Remote Access:

External SSH access is available at crystal.harvard.edu.

Forwarding your red email to Crystal:

  • Please contact SBGrid help if you have questions about forwarding.

Networking and General IT Support:

To report problems regarding the network at DFCI, or general computing support, contact the Partners Healthcare Help desk at: helpdesk.partners.org (Note: this link only works from a Partners network connection)

Shared Linux Workstations:

| Name | OS | Hardware Configuration|Location|Notes| |---|---|---|---|---| |aqua|Sci Linux 6|Intel Core 2 Duo at 3.33GHz. 2 cores. 1GB or RAM. Nvidia Quadro FX 3700.|X-Ray room(Longwood Center) |Last checked: 13/09/2015, HKL2000 licensed, Works with Marresearch scanner | |plum|Sci Linux 6 |AMD Athlon 64 Dual Core Processor 4800+. 2 cores. 1GB of RAM.|X-Ray room (Longwood Center)|Last checked: 03/09/2015, HKL2000 licensed, Works with Marresearch scanner | |mjel11|Sci Linux 6|Intel Core i7 at 3.20GHz. 4 cores. 6 GB of RAM. Nvidia Quadro FX 3800.| Wet lab|Last checked: 03/03/2015| |mjel12|Sci Linux 6|Intel Core i7 at 3.20GHz. 4 cores. 6 GB of RAM. Nvidia Quadro FX 3800.| Wet lab|Last checked: 03/03/2015, HKL2000 licensed| |mjel13|Sci Linux 6|Intel Core i7 at 3.20GHz. 4 cores. 6 GB of RAM.| Wet lab|Last checked: 03/03/2015| |mjel14|Sci Linux 6|Intel Core i7 at 3.20GHz. 4 cores. 32 GB of RAM. Nvidia Quadro 4000.| Graphics room ((Longwood Center)|Last checked: 03/09/2015 \ |mjel15|Sci Linux 6|Intel Core i7 at 3.60GHz. 4 cores. 16 GB of RAM. Nvidia Quadro 4000.| Computer lab|Last checked: 03/04/2015 \ |xrc1|Sci Linux 6|Intel Core Quad at 2.66GHz. 4 cores. 4GB of RAM. Nvidia Quadro FX 1400| Graphics room (Longwood Center)|Last checked: 03/02/2015 \

Mac Workstations:

| Name | OS | Hardware Configuration|Account Backed up| Administrator | |---|---|---|---|---| |wood-imac|OSX 10.10.5|iMac10,1, Intel Core 2 Duo 3.06 GHz 2 Cores, Memory: 4 GB, NVIDIA GeForce 9400|Yes|David Wood | |mje-dwood-imac|OSX 10.5.8|iMac8,1, Intel Core 2 Duo 2.66 GHz 2 Cores, Memory: 2 GB, ATI Radeon HD 2600 Pro, |No| |jwh-macpro|OSX 10.8.5|MacPro3,1 Quad-Core Intel Xeon 8 Cores, Memory: 10 GB, NVIDIA Quadro FX 5600, |Yes|Jia-Huai | |yiquns-imac|OSX 10.8.5|iMac11,2, Intel Core i3 3.06 GHz 2 Cores Memory: 4 GB ATI Radeon HD 4670|Yes|SBGrid, (user: hjeon) | |randalls-imac (broken)|OSX 10.8.5|iMac10,1 Intel Core 2 Duo 3.06 GHz 2 Cores, Memory: 4 GB, NVIDIA GeForce 9400|Yes| Randall McNally | |mike_eck_macpro|OSX 10.9.4|MacPro3,1 Quad-Core Intel Xeon 8 Cores, Memory: 8GB, NVIDIA Quadro FX 5600|Yes|Mike Eck | |humayuns-imac|OSX 10.10.1|iMac14,2 Intel Core i5 4 Cores, Memory 16GB, NVIDIA GeForce GT 755M| Yes|Humayun Sharif | |asher-page-imac|OSX 10.8.5|iMac13,1 Intel Core i5 2.7 GHz 4 Cores, Memory: 8GB,NVIDIA GeForce GT 640M|Yes|Randall McNally | |li-imac|tbd|tbd|Yes|Qing Li | |dhcp-155-52-53-43|tbd|tbd| |common iMac (gel reader)|