EMBOSS under win2000

[Brian Osborne]

Asen,

No, cygwin is all standard on my machine, cygwin_nt-5.0 on Windows 2000 Pro.
If you'd like I can take a look at the make errors, send them my way. First
suggestion: make sure you have all the libraries, I noticed EMBOSS used
libpng.a and a bunch of others. Cygwin should have them all, you just have
to figure out which packages have them, the descriptions aren't always
clear. Does EMBOSS use libgd.a? I don't think so, but that one doesn't come
with cygwin. libfreetype.a is a part of one of the Xfree fonts packages but
this isn't at all clear just reading the descriptions in setup.exe. Does
EMBOSS use it?

The problem with benchmarking is I don't have 2 identical machines, or a
double-booting machine, set up here. I would bet that the executables would
run at about the same speed on cygwin as they do native on Windows. Cygwin
is a very "thin" emulator, just a bash shell using 2 M of memory, and it's
using gcc, just as in Linux. Cygwin bash is just as fast as Windows Command
Prompt, I'm sure of it, I just ran some different Perl one-liners, cygwin
was slightly better (so that's cygwin tcsh and Perl versus Command Prompt
and ActiveState Perl). But I agree, one should do the test, you'd like to
test the OS's, not the emulator. I can run a test for you if you'd like,
just tell me what to do.

That URL for the demo is old, it shouldn't work. What you can do is call up
Sales at 212.331.7842, or write sales at cognia.com, they would be happy to
show Cognia Molecular to you.

Brian O.


-----Original Message-----
From: Asen Nenov [mailto:asen.nenov at metalife.de]
Sent: Friday, December 20, 2002 4:08 AM
To: Brian Osborne; emboss at embnet.org
Subject: Re: EMBOSS under win2000

Hi Brian,

Actually I tested the compiling of EMBOSS 2.5.1 under CYGWIN [WIN2000
Professional] last week. It crashed 30 secs after running MAKE. Is there
something special that you change to run the process?

Second question is: Did you plan to run some benchmarking on EMBOSS under
win2000 vs. EMBOSS under Linux server. It will be interesting, exaclty how
slower it is running. :-)

Regards
Asen

p.s. Out of subject: I wanted to test some of your tools on Cognia website,
but the demo link gave me Error 500:
http://nt.cognia.com/demopcdb/index.jsp
Any ideas how to access this demo?

METALIFE AG - Sofia, Bulgaria
asen.nenov at metalife.de
www.metalife.de
++359 2 950 1802

----- Original Message -----
From: "Brian Osborne" <brian_osborne at cognia.com>
To: <emboss at embnet.org>
Sent: Thursday, December 19, 2002 11:09 PM
Subject: EMBOSS


> EMBOSSers,
>
> I'm pleased to report that EMBOSS 2.5.1 compiles and installs cleanly on
> cygwin ("CYGWIN_NT-5.0 1.3.17(0.67/3/2) 2002-11-27 18:54 i686 unknown")
from
> www.cygwin.org. I've only used a few of the EMBOSS programs but I'd be
very
> surprised if any didn't work, cygwin handles standard languages with no
> difficulty.
>
> For those of you who haven't run across cygwin it's a Unix emulator
running
> on Windows machines. The package contains most common Unix utilities as
well
> as a C compiler, support for Perl and Python, apache, many standard
> libraries, ssh, cvs, emacs, tcsh/zsh, and so on. Connecting to mysql and
> Oracle is also possible, I do it myself, but setting it up can be a little
> trickier than on Unix machines. Installing cygwin creates a set of
> directories in the Windows filesystem that look just like Unix directories
> by name but behave like regular Windows folders. Installation is very
easy.
> It's free and its performance is very good, it should be recommended to
> those who want to use EMBOSS on Windows machines.
>
> Thanks once again for your excellent work,
>
> Brian O.
>
> Brian Osborne
> Director of Informatics
> Cognia http://www.cognia.com
> brian_osborne at cognia.com
> 117 E. 55th St.
> NYC NY USA 10022
> TEL 212 331 7848
> FAX 646 349 1835
>
>
>