[Biopython-dev] mxTextools install and biopython 2.1

[Peter Wilkinson]

Does anyone know why the mxTexttools is strangely configures? If activestate
Python 2.1 comes with Martel, and we install Biopython in the root of the
install as Bio:

How is mxTexttools supposed to be linked up properly, how and where is it
installed?  I had a problem with my install and I had to redo it. I can not
figure it out.

anyone?

Peter

> -----Original Message-----
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>    1. Notification: incoming/44 (biopython-bugs at bioperl.org)
>    2. Notification: incoming/45 (biopython-bugs at bioperl.org)
>    3. Notification: incoming/46 (biopython-bugs at bioperl.org)
>    4. Notification: incoming/47 (biopython-bugs at bioperl.org)
>
> --__--__--
>
> Message: 1
> Date: Tue, 23 Oct 2001 18:50:52 -0400
> From: biopython-bugs at bioperl.org
> To: biopython-dev at biopython.org
> Subject: [Biopython-dev] Notification: incoming/44
>
> JitterBug notification
>
> new message incoming/44
>
> Message summary for PR#44
> 	From: gec at compbio.berkeley.edu
> 	Subject: Raised no existant error?
> 	Date: Tue, 23 Oct 2001 18:50:52 -0400
> 	0 replies 	0 followups
>
> ====> ORIGINAL MESSAGE FOLLOWS <====
>
> >From gec at compbio.berkeley.edu Tue Oct 23 18:50:52 2001
> Received: from localhost (localhost [127.0.0.1])
> 	by pw600a.bioperl.org (8.11.2/8.11.2) with ESMTP id f9NMoqB13192
> 	for <biopython-bugs at pw600a.bioperl.org>; Tue, 23 Oct
> 2001 18:50:52 -0400
> Date: Tue, 23 Oct 2001 18:50:52 -0400
> Message-Id: <200110232250.f9NMoqB13192 at pw600a.bioperl.org>
> From: gec at compbio.berkeley.edu
> To: biopython-bugs at bioperl.org
> Subject: Raised no existant error?
>
> Full_Name: Gavin Crooks
> Module: SCOP/Dom.py
> Version:
> OS:
> Submission from: sienna.berkeley.edu (128.32.236.51)
>
>
> When fed a corrupt file Dom.DomainParser will
> attempt to raise "error", but error hasn't been
> defined.
>
> NameError: global name 'error' is not defined
>
>
>
>
>
>
> --__--__--
>
> Message: 2
> Date: Tue, 23 Oct 2001 18:54:40 -0400
> From: biopython-bugs at bioperl.org
> To: biopython-dev at biopython.org
> Subject: [Biopython-dev] Notification: incoming/45
>
> JitterBug notification
>
> new message incoming/45
>
> Message summary for PR#45
> 	From: gec at compbio.berkeley.edu
> 	Subject: PDB sequence numbers can be negative
> 	Date: Tue, 23 Oct 2001 18:54:38 -0400
> 	0 replies 	0 followups
>
> ====> ORIGINAL MESSAGE FOLLOWS <====
>
> >From gec at compbio.berkeley.edu Tue Oct 23 18:54:38 2001
> Received: from localhost (localhost [127.0.0.1])
> 	by pw600a.bioperl.org (8.11.2/8.11.2) with ESMTP id f9NMscB13266
> 	for <biopython-bugs at pw600a.bioperl.org>; Tue, 23 Oct
> 2001 18:54:38 -0400
> Date: Tue, 23 Oct 2001 18:54:38 -0400
> Message-Id: <200110232254.f9NMscB13266 at pw600a.bioperl.org>
> From: gec at compbio.berkeley.edu
> To: biopython-bugs at bioperl.org
> Subject: PDB sequence numbers can be negative
>
> Full_Name: Gavin Crooks
> Module: SCOP/Location.py
> Version:
> OS:
> Submission from: sienna.berkeley.edu (128.32.236.51)
>
>
>
> PDB residue sequence numbers can, on occasion, be
> negative. e.g. 1B9N. SCOP domains sometimes start
> on negative sequence numbers. This breaks the
> location parser in Bio.SCOP.Location.py
>
>
>
> --__--__--
>
> Message: 3
> Date: Tue, 23 Oct 2001 18:56:44 -0400
> From: biopython-bugs at bioperl.org
> To: biopython-dev at biopython.org
> Subject: [Biopython-dev] Notification: incoming/46
>
> JitterBug notification
>
> new message incoming/46
>
> Message summary for PR#46
> 	From: gec at compbio.berkeley.edu
> 	Subject: PDB sequence numbers can be negative
> 	Date: Tue, 23 Oct 2001 18:56:44 -0400
> 	0 replies 	0 followups
>
> ====> ORIGINAL MESSAGE FOLLOWS <====
>
> >From gec at compbio.berkeley.edu Tue Oct 23 18:56:44 2001
> Received: from localhost (localhost [127.0.0.1])
> 	by pw600a.bioperl.org (8.11.2/8.11.2) with ESMTP id f9NMuiB13330
> 	for <biopython-bugs at pw600a.bioperl.org>; Tue, 23 Oct
> 2001 18:56:44 -0400
> Date: Tue, 23 Oct 2001 18:56:44 -0400
> Message-Id: <200110232256.f9NMuiB13330 at pw600a.bioperl.org>
> From: gec at compbio.berkeley.edu
> To: biopython-bugs at bioperl.org
> Subject: PDB sequence numbers can be negative
>
> Full_Name: Gavin Crooks
> Module: SCOP/Location.py
> Version:
> OS:
> Submission from: sienna.berkeley.edu (128.32.236.51)
>
>
>
> PDB residue sequence numbers can, on occasion, be
> negative. e.g. 1B9N. SCOP domains sometimes start
> on negative sequence numbers. This breaks the
> location parser in Bio.SCOP.Location.py
>
>
>
> --__--__--
>
> Message: 4
> Date: Tue, 23 Oct 2001 23:19:42 -0400
> From: biopython-bugs at bioperl.org
> To: biopython-dev at biopython.org
> Subject: [Biopython-dev] Notification: incoming/47
>
> JitterBug notification
>
> new message incoming/47
>
> Message summary for PR#47
> 	From: gec at compbio.berkeley.edu
> 	Subject: Tutorial typos
> 	Date: Tue, 23 Oct 2001 23:19:41 -0400
> 	0 replies 	0 followups
>
> ====> ORIGINAL MESSAGE FOLLOWS <====
>
> >From gec at compbio.berkeley.edu Tue Oct 23 23:19:41 2001
> Received: from localhost (localhost [127.0.0.1])
> 	by pw600a.bioperl.org (8.11.2/8.11.2) with ESMTP id f9O3JfB15056
> 	for <biopython-bugs at pw600a.bioperl.org>; Tue, 23 Oct
> 2001 23:19:41 -0400
> Date: Tue, 23 Oct 2001 23:19:41 -0400
> Message-Id: <200110240319.f9O3JfB15056 at pw600a.bioperl.org>
> From: gec at compbio.berkeley.edu
> To: biopython-bugs at bioperl.org
> Subject: Tutorial typos
>
> Full_Name: Gavin Crooks
> Module: Tutotial.tex
> Version:
> OS:
> Submission from: sdn-ar-013casfrmp012.dialsprint.net (158.252.217.14)
>
>
>
> The tutorial contains a few minor bugs.
>
> Page 5: "Installation of FreeBSD" should be "Installation on FreeBSD"
>
> Page 6: The first sentance of section 1.3.3 does not make sence.
>
> Everywhere: "ie." should be "i.~e.~TheNextWord", or "i.~e.,"
>
> Page 11 : "created for free for you" should be "created for free"?
>
> Page 43ish: Some html has worked its way into the tex file,
> producing some odd
> symbols. Plus some of the number have hats on.
>
>
>
>
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