[EMBOSS] Do I need to uninstall old EMBOSS?

[David Bauer]

Hi Robin,

I changed to Mac not so long ago so I don't have extensive experiences.
But on other systems I usually have just installed the new version in the same place like the old one, simply by overwriting the old files. 
But because your old EMBOSS is really OLD, you should than check if some traces of the old system (with different names) have survived the update.
Especially all the internal libs (libnucleus, libajax etc.) can cause trouble if you have some older versions sitting around which ld picks up during runtime. This can cause strange error messages.
So make sure you don't have multiple copies of them.

With EMBOSS 6.6.0 the installation from source on Mac (10.9.1) worked fine. I have installed the prerequisite libraries (zlib, png, gd, pdf etc.) from MacPorts. So I don't have experiences with Fink.
There were just 2 issues with the png driver. 
1) You have to give manually configure the hint where the libraries are (--with-pngdriver=/opt/local). This is for macports. I think fink puts the libs somewhere in /sw 
2) The check for png support in libgd does not work. So I simply set "CHECK=1" in configure after the checks for gdImageCreateFromPng (yes, I know this is a dirty hack...)  At least on my system the programs with graphics output can generate png files without problems.

I have not yet tried if Jemboss runs on MacOS because I normally use EMBOSS just on command line. For casual users I find the simple web interface of emboss explorer quite usefull. But you probably don't want to install apache on your MacBook.

Hope this helps.

Kind regards,
David.

-----Ursprüngliche Nachricht-----
Von: emboss-bounces at lists.open-bio.org [mailto:emboss-bounces at lists.open-bio.org] Im Auftrag von Robin Colgrove
Gesendet: 18 December 2013 19:37
An: EMBOSS at lists.open-bio.org
Betreff: [EMBOSS] Do I need to uninstall old EMBOSS?


Hello all,

I have a very old version of EMBOSS (3.1 I think) that I have been using for years in the command line. On my new MacBook Air, OS X 10.8.5, I get a "Bad CPU type in executable" error. This has given me the incentive to finally upgrade.

My question is whether I need to uninstall the old -now non-working- EMBOSS before installing the new one, and if so where can I find instructions for that.

Last time I installed EMBOSS, it took me days to root out all the errors, so this time I was thinking of using Fink (which I also haven't used for years).

I've also never used the GUI's for EMBOSS, so I'm happy for any opinions on what's best.

thanks,

Robin Colgrove
Dept of Microbiology and Immunobiology
Harvard Medical School


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