Re: [wgs-assembler-users] sweatShop.h not found

[Wright, C. (CDC/OID/N. (CTR) <wm...@cd...>]

Joanna - from one of Brian's earlier messages:

The latest bits are at

http://wgs-assembler.sf.net/wgs-20121130.tar.bz2

Includes both kmer and the assembler proper.  I compiled with no issues (on FreeBSD, gcc 4.4). Hopefully we won't have to debug gmake and dependencies.

Note that in our case we were unable to pass CVS traffic across our network and tar downloads from ViewVC were corrupt.  I highly recommend attempting a CVS checkout.

From: Joanna Kelley [mailto:jok...@st...]
Sent: Wednesday, December 05, 2012 2:00 PM
To: Wright, Cory (CDC/OID/NCIRD) (CTR)
Cc: Walenz, Brian; wgs...@li...
Subject: Re: [wgs-assembler-users] sweatShop.h not found

Hello,

I am having the same problem with the cvs checkout, is there another place to obtain
the up-to-date source?

Thanks!
Joanna
On Fri, Nov 30, 2012 at 9:37 AM, Wright, Cory (CDC/OID/NCIRD) (CTR) <wm...@cd...<mailto:wm...@cd...>> wrote:
I used all the steps described here and in the wiki article to replicate the problem, with one exception in Step 2:  we are forced to download the source tarball via ViewVC instead of checking out via the cvs command.  Is there an alternative way to obtain the source?  Thanks for any and all help.

From: Walenz, Brian [mailto:bw...@jc...<mailto:bw...@jc...>]
Sent: Friday, November 30, 2012 12:06 PM
To: Wright, Cory (CDC/OID/NCIRD) (CTR); 'wgs...@li...<mailto:wgs...@li...>'
Subject: Re: [wgs-assembler-users] sweatShop.h not found

Hi-

Do you have kmer/ installed?  (It's in SVN if you need it).  https://sourceforge.net/apps/mediawiki/wgs-assembler/index.php?title=Check_out_and_Compile.  In kmer/ it needs a 'gmake install' to put the libraries and headers in the correct spot.

You don't need a fresh checkout, just a fresh compile.  Delete the Linux-amd64 directory and try again.

We keep avoiding the switch over to subversion (and keep forgetting to delete the one that is there).  We really should bite the bullet and do it, if only so we can rename *.c to *.C and get rid of all those symlinks.

b



On 11/30/12 11:50 AM, "Wright, Cory (CDC/OID/NCIRD) (CTR)" <wm...@cd...<http://wm...@cd...>> wrote:
Hi All

In trying to compile the latest source code I receive the error seen here: http://sourceforge.net/tracker/?func=detail&aid=3420389&group_id=106905&atid=645639

Unfortunately "starting over with a fresh checkout" is not an option as our organization blocks CVS traffic.  SVN is allowed, and I noticed that there is a SVN repo, but it does not appear to have been updated in some time.  Is it possible to update the SVN repo so we can be on our merry way?  :)  Thanks all and have a great day.

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--
Joanna L. Kelley, PhD
Department of Genetics
Stanford School of Medicine
300 Pasteur Drive
Lane Building, Room L-333
Stanford, CA 94305-5120
jok...@st...<mailto:jok...@st...>