From jmlingeman@nyu.edu Sat Dec 8 11:41:15 2012 Received: from mx2.cims.nyu.edu (mx2.cims.nyu.edu [128.122.49.96]) by mail.cims.nyu.edu (8.14.5+Sun/8.14.5) with ESMTP id qB8GfF5u017892 for ; Sat, 8 Dec 2012 11:41:15 -0500 (EST) Received: from mx1.nyu.edu (MX1.NYU.EDU [128.122.118.241]) by mx2.cims.nyu.edu (8.14.4+Sun/8.14.4) with ESMTP id qB8Gf76S016770 for ; Sat, 8 Dec 2012 11:41:07 -0500 (EST) Received: from mx1.nyu.edu (localhost [127.0.0.1]) by mx1.nyu.edu (8.13.8/8.13.8) with ESMTP id qB8Gf2Np006103 for ; Sat, 8 Dec 2012 11:41:02 -0500 (EST) Received: from mail-wi0-f173.google.com (mail-wi0-f173.google.com [209.85.212.173]) (authenticated bits=0) by mx1.nyu.edu (8.13.8/8.13.8) with ESMTP id qB8Gf1ce006093 for ; Sat, 8 Dec 2012 11:41:01 -0500 (EST) Received: by mail-wi0-f173.google.com with SMTP id hn17so240334wib.12 for ; Sat, 08 Dec 2012 08:41:01 -0800 (PST) Received: by 10.216.209.70 with SMTP id r48mr3604968weo.196.1354984861011; Sat, 08 Dec 2012 08:41:01 -0800 (PST) MIME-Version: 1.0 Received: by 10.180.87.132 with HTTP; Sat, 8 Dec 2012 08:40:40 -0800 (PST) In-Reply-To: References: <201209261457.q8QEvvUK002999@crunchy12.cims.nyu.edu> From: Jesse Lingeman Date: Sat, 8 Dec 2012 11:40:40 -0500 Message-ID: Subject: Fwd: Network Inference book To: Dennis Shasha Content-Type: multipart/alternative; boundary=0016e6d63fec510eb204d059ffdb X-Greylist: Sender IP whitelisted, not delayed by milter-greylist-4.2.6 (mx2.cims.nyu.edu [128.122.49.96]); Sat, 08 Dec 2012 11:41:07 -0500 (EST) X-Scanned-By: MIMEDefang 2.73 on 128.122.49.96 Status: R Content-Length: 1791 --0016e6d63fec510eb204d059ffdb Content-Type: text/plain; charset=ISO-8859-1 Content-Transfer-Encoding: quoted-printable -- Jesse Lingeman jmlingeman@nyu.edu ---------- Forwarded message ---------- From: Jesse Lingeman Date: Tue, Oct 2, 2012 at 11:49 AM Subject: Re: Network Inference book To: Marco Antoniotti Cc: Dennis Shasha Sorry, forgot to send some instructions on how to use that VM. You should just be able to import that into VirtualBox under File->Import. Once you load it up, the username to log in is: netinf and the password is inference. This user has sudo privileges. To run a demo script that will use most of the features of the software, open a terminal and cd into the InferenceWorkspace folder that is in netinf's home directory. Then type in: python TestGENIE3.py dream410 Where TestGENIE3.py is the name of the demo script, and dream410 is the data to use. This will launch 4 different processes in the local job manager that will run the algorithm on the data, and then return and generate some graphs and the like. The output will be in the output folder in the InferenceWorkspace folder. Let me know if you run into any issues or have any questions. I'll let both of you know once I iron out the issues with Octave (it involves me going thru and fixing Matlab-only syntax that Octave does not emulate) and I'll put a new version of both the code and the VM online. There is also a wiki available at: https://github.com/smidget/Network-Inference-Workspace/wiki It is pretty sparse right now, but I'll be adding large updates to it over the course of the next week. Thanks, and please let me know if you have any questions or issues. -- Jesse Lingeman jmlingeman@nyu.edu