From mjd@genomics.upenn.edu Thu Mar 5 14:46:59 2009 Subject: Re: Master task list right now From: Mark Dominus Reply-To: mjd@genomics.upenn.edu To: William Piel , Val Tannen Cc: Rutger Vos In-Reply-To: <1236276362.26672.29.camel@localhost> References: <1233607488.31015.41.camel@localhost> <46874146-F1B3-4E93-8883-FABB054625AD@cis.upenn.edu> <4BB519AD-8458-4F99-A2A8-0B2A3907D8C7@yale.edu> <1236276362.26672.29.camel@localhost> Content-Type: multipart/alternative; boundary="=-5A95mjedw0piK0nhanbv" Organization: Plover Systems Co. Message-Id: <1236282419.26672.51.camel@localhost> Mime-Version: 1.0 X-Mailer: Evolution 2.22.3.1 Bcc: mjd@plover.com Date: Thu, 05 Mar 2009 14:46:59 -0500 X-Evolution-Format: text/html X-Evolution-Account: 1161284922.14897.20@entropy X-Evolution-Transport: smtp://mjd;auth=PLAIN@smtp.seas.upenn.edu/;use_ssl=when-possible X-Evolution-Fcc: mbox:/home/mjd/.evolution/mail/local#Sent --=-5A95mjedw0piK0nhanbv Content-Type: text/plain Content-Transfer-Encoding: 8bit On Thu, 2009-03-05 at 13:06 -0500, Mark Dominus wrote: > > 1. Title: Populate JRUAN schema with data from treebase 1 > > This is generally done, but there are some loose ends to tie up, which I > will detail in a later message. Known loose ends: 1. Around twenty matrices are still not loaded. Bill sent corrections for several. I need to load these and then continue to investigate the others. 2. Around four trees are still not loaded. I need to try again to load them and then refer problems to Bill or to myself as appropriate. 3. As a result of (1) and (2), around 10 studies have not yet been created. 4. The original nexus files are not in the database. 5. Some taxonlabelset objects are missing certain taxon labels. 6. Depending on the answer to a question I asked Bill earlier today, there might be too many taxonlabelset objects. 7. (a) Tree objects need to have their nTAX data populated. (b) Matrix objects need to have their nCHAR and nTAX data populated. 8. There are some superfluous objects in the database that should be destroyed. If these were to be displayed in search results, it would be confusing. There may be other loose ends that I did not include here. -- Mark Jason Dominus mjd@genomics.upenn.edu Penn Genome Frontiers Institute +1 215 573 5387 --=-5A95mjedw0piK0nhanbv Content-Type: text/html; charset=utf-8 Content-Transfer-Encoding: 8bit On Thu, 2009-03-05 at 13:06 -0500, Mark Dominus wrote: 
> 1. Title: Populate JRUAN schema with data from treebase 1

This is generally done, but there are some loose ends to tie up, which I
will detail in a later message.


Known loose ends:

1. Around twenty matrices are still not loaded.     Bill sent corrections for several.  I need to load these and then continue to investigate the others.

2. Around four trees are still not loaded.  I need to try again to load them and then refer problems to Bill or to myself as appropriate.

3. As a result of (1) and (2), around 10 studies have not yet been created.

4. The original nexus files are not in the database.

5. Some taxonlabelset objects are missing certain taxon labels.

6. Depending on the answer to a question I asked Bill earlier today, there might be too many taxonlabelset objects.

7. (a) Tree objects need to have their nTAX data populated.  (b) Matrix objects need to have their nCHAR and nTAX data populated.

8. There are some superfluous objects in the database that should be destroyed.  If these were to be displayed in search results, it would be confusing.

There may be other loose ends that I did not include here.
                              
-- 
Mark Jason Dominus                               mjd@genomics.upenn.edu
Penn Genome Frontiers Institute                         +1 215 573 5387
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