[BioDarwin] RE: prettyplot pdf in colour?
Porter, Christopher
cporter at ohri.ca
Mon Jul 21 09:10:24 EDT 2003
You could try the ps2pdf script in /usr/local/bin - it preserved colour in
some files I recently converted from PostScript. Using the terminal, type
'ps2pdf file.ps'.
I would expect macps2pdf to preserve the colour, though. Are you sure the
PostScript file contains the colour information. I haven't used prettyplot
for years - does it have an option to save colour ps files?
Chris
> --__--__--
>
> Message: 1
> Date: Fri, 18 Jul 2003 20:03:21 +0200
> From: Ebrahim Mayat <ebmayat at mac.com>
> To: biodarwin at bioinformatics.org
> Subject: [BioDarwin] prettyplot pdf in colour?
> Reply-To: biodarwin at bioinformatics.org
>
> Hi all
>
> I am able to produce a beautiful colored, boxed multiple protein
> alignment chart in an X-Windows terminal using the "prettyplot" program
> from EMBOSS. When I save this chart in ps and then use the program
> "macps2pdf 2.2.5" I can obtain a pdf file of my alignment chart but I
> lose the informative and aesthetically pleasing color coded boxes.
>
> Since I have ImageMagick installed, I have tried "convert prettyplot.ps
> prettyplot.pdf". This just returns an error message. I have also tried
> to print the ps file directly: "pr prettyplot.ps" or "lpr *.ps"...no
> success.
>
> Is there any possible way to maintain the color coding of this alignment
> chart when printing to pdf format? Alternatively, is it possible to
> directly send to my printer an X-Windows output or a ps file?
>
> All suggestions would be appreciated.
> Ebrahim
> --------------------------------------------------------------------------
> -------------------------
> Ebrahim Mayat Ph.D.
> Johannesburg
> South Africa
> E-Mail: ebmayat at mac.com
>
>
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> Message: 2
> Date: Fri, 18 Jul 2003 16:56:33 -0400
> From: "J.W. Bizzaro" <jeff at bioinformatics.org>
> To: biodarwin <biodarwin at bioinformatics.org>
> Subject: [BioDarwin] [Fwd: [Bioclusters] Can't run full duplex on the
> xserve]
> Reply-To: biodarwin at bioinformatics.org
>
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> From: "Ruotti, Victor" <vruotti at mcw.edu>
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> Hello,
> I have two xserves running OS X 10.2.6. Both Ethernet cards are active and
> only running half duplex.
> I have tried using the ifconfig command to change it to full duplex by:
> sudo ifconfig en0 mediaopt full-duplex
>
> It seems to work fine, however if I go and look at interface en0 by typing
> ifconfig, I see that the change did not take effect.
>
> I also tried to use the GUI Cocktail and this program wont let me change
> the
> interfaces to full-duplex neither. I have also tried to put a script in
> the
> /Library/StartupItem as suggested by the article in the apple site and it
> did not work.
>
> Do any of you have the same problem and know what is the best way to set
> the
> Ethernet cards of the xserve on full-duplex?
>
> Thanks in advance.
> Victor Ruotti
> Medial College of Wisconsin
>
> ------_=_NextPart_001_01C34D6A.8F57E480
> Content-Type: text/html; charset="iso-8859-1"
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> <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN">
> <HTML><HEAD>
> <DEFANGED_META HTTP-EQUIV="Content-Type" CONTENT="text/html;
> charset=iso-8859-1">
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> <BODY>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New"
> size=2>Hello,</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>I have
> two
> xserves running OS X 10.2.6. Both Ethernet cards are active and only
> running
> half duplex.</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>I have
> tried
> using the ifconfig command to change it to full duplex
> by:</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>sudo
> ifconfig en0 mediaopt full-duplex</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New"
> size=2></FONT></SPAN> </DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>It
> seems to
> work fine, however if I go and look at interface en0 by typing ifconfig, I
> see
> that the change did not take effect.</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New"
> size=2></FONT></SPAN> </DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>I also
> tried
> to use the GUI Cocktail and this program wont let me change the interfaces
> to
> full-duplex neither. I have also tried to put a script in the
> /Library/StartupItem as suggested by the article in the apple site and it
> did
> not work. </FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New"
> size=2></FONT></SPAN> </DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>Do any
> of
> you have the same problem and know what is the best way to set the
> Ethernet
> cards of the xserve on full-duplex?</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New"
> size=2></FONT></SPAN> </DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>Thanks
> in
> advance.</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>Victor
>
> Ruotti</FONT></SPAN></DIV>
> <DIV><SPAN class=250052421-18072003><FONT face="Courier New" size=2>Medial
>
> College of Wisconsin</FONT></SPAN></DIV></BODY></HTML>
>
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> _______________________________________________
> Bioclusters maillist - Bioclusters at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
>
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> --__--__--
>
> Message: 3
> Date: Fri, 18 Jul 2003 17:38:41 -0400
> Subject: Re: [BioDarwin] [Fwd: [Bioclusters] Can't run full duplex on the
> xserve]
> From: James Graham <jrg at world.std.com>
> To: biodarwin at bioinformatics.org
> Reply-To: biodarwin at bioinformatics.org
>
>
> From: "Ruotti, Victor" <vruotti at mcw.edu>
> Date: Fri Jul 18, 2003 4:24:16 PM US/Eastern
> To: "'bioclusters at bioinformatics.org'" <bioclusters at bioinformatics.org>
> Subject: [Bioclusters] Can't run full duplex on the xserve
> Reply-To: bioclusters at bioinformatics.org
>
>
> > I have two xserves running OS X 10.2.6. Both Ethernet cards are active
> > and only running half duplex.
> > I have tried using the ifconfig command to change it to full duplex by:
> > sudo ifconfig en0 mediaopt full-duplex
>
> try this:
>
> sudo ifconfig en0 media 100basetX mediaopt full-duplex
>
> this may not stick after a restart, though, so you may want to set up a
> custom startup item.
>
> hope this helps,
> james
>
>
>
>
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