Recent changes to support-requests

PhylipNew 3.67 make error

Anonymous — Thu, 28 Aug 2008 14:40:44 -0000

make exit with error (see below)
I did ./configure --prefix=/usr/biotools
w<hich is teh very same prefix I used to install emboss 601 and all other embassy packages with success.
Only Phylip blocks there

Please help ?

mailto:Stephane.plaisance@vib.be

===========
then mv -f ".deps/phylip.Tpo" ".deps/phylip.Po"; else rm -f ".deps/phylip.Tpo"; exit 1; fi
/bin/sh ../libtool --tag=CC --mode=link gcc -O2 -o fclique clique.o disc.o phylip.o -L/usr/biotools/lib -lnucleus -lajax -leplplot -lm
mkdir .libs
gcc -O2 -o fclique clique.o disc.o phylip.o -L/usr/biotools/lib /usr/biotools/lib/libnucleus.so /usr/biotools/lib/libajax.so /usr/biotools/lib/libeplplot.so -lm -Wl,--rpath -Wl,/usr/biotools/lib -Wl,--rpath -Wl,/usr/biotools/lib
/usr/biotools/lib/libeplplot.so: undefined reference to `XCreateFontCursor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFree'
/usr/biotools/lib/libeplplot.so: undefined reference to `XClearWindow'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageDestroy'
/usr/biotools/lib/libeplplot.so: undefined reference to `XLookupString'
/usr/biotools/lib/libeplplot.so: undefined reference to `XAllocNamedColor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFreeColors'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCreateWindow'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageCreateTrueColor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XOpenDisplay'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageLine'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImagePngPtrEx'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCopyArea'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSynchronize'
/usr/biotools/lib/libeplplot.so: undefined reference to `XDrawLine'
/usr/biotools/lib/libeplplot.so: undefined reference to `XDestroyWindow'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCloseDisplay'
/usr/biotools/lib/libeplplot.so: undefined reference to `XGetErrorText'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetForeground'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFillRectangle'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdFree'
/usr/biotools/lib/libeplplot.so: undefined reference to `XGetGeometry'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFreeGC'
/usr/biotools/lib/libeplplot.so: undefined reference to `XAllocColorCells'
/usr/biotools/lib/libeplplot.so: undefined reference to `XDrawLines'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetBackground'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetFunction'
/usr/biotools/lib/libeplplot.so: undefined reference to `XWindowEvent'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetLineAttributes'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetWindowBackground'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCreateGC'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSelectInput'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFlush'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSync'
/usr/biotools/lib/libeplplot.so: undefined reference to `XWarpPointer'
/usr/biotools/lib/libeplplot.so: undefined reference to `XPutImage'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFillPolygon'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageGifPtr'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageFilledPolygon'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageColorDeallocate'
/usr/biotools/lib/libeplplot.so: undefined reference to `XDefineCursor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XGetImage'
/usr/biotools/lib/libeplplot.so: undefined reference to `XAllocColor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XQueryPointer'
/usr/biotools/lib/libeplplot.so: undefined reference to `XUndefineCursor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XGetVisualInfo'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageSetThickness'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetStandardProperties'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCheckWindowEvent'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetErrorHandler'
/usr/biotools/lib/libeplplot.so: undefined reference to `XFreePixmap'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageCreate'
/usr/biotools/lib/libeplplot.so: undefined reference to `XCreatePixmap'
/usr/biotools/lib/libeplplot.so: undefined reference to `XMapRaised'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageFilledRectangle'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageSetAntiAliased'
/usr/biotools/lib/libeplplot.so: undefined reference to `XStoreColor'
/usr/biotools/lib/libeplplot.so: undefined reference to `XSetWindowColormap'
/usr/biotools/lib/libeplplot.so: undefined reference to `XPending'
/usr/biotools/lib/libeplplot.so: undefined reference to `gdImageColorAllocate'
collect2: ld returned 1 exit status
make[1]: *** [fclique] Error 1
make[1]: Leaving directory `/home/splaisan/Desktop/PHYLIPNEW-3.67/src'
make: *** [all-recursive] Error 1
===========

EMBOSS Installation Problem

Anonymous — Thu, 31 Jul 2008 04:16:50 -0000

Subject: [emboss-bug] EMBOSS Installation Problem
From: "Xiao-Ping Zhang" <xpzhang@ucdavis.edu>
Date: Sun, July 27, 2008 8:47 pm
To: emboss-bug@emboss.open-bio.org
----------------------------------------------------------------------------------------------------------------------

Dear Sir/Madam,

I installed EMBOSS 6.0.1 on Fedora release 8 without seeing any error or
complain. But when call "runJemboss.csh", I got the following error.

I even reinstalled the latest Java using the instructions from:
http://fedorasolved.org/browser-solutions/java-i386/ .
After reinstallation, java works fine but I still get the same error
with EMBOSS.

[zhang@localhost ~]$ Exception in thread "main"
java.lang.NoClassDefFoundError: org/emboss/jemboss/Jemboss
Caused by: java.lang.ClassNotFoundException: org.emboss.jemboss.Jemboss
at java.net.URLClassLoader$1.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(Unknown Source)
at java.lang.ClassLoader.loadClass(Unknown Source)
at sun.misc.Launcher$AppClassLoader.loadClass(Unknown Source)
at java.lang.ClassLoader.loadClass(Unknown Source)
at java.lang.ClassLoader.loadClassInternal(Unknown Source)
Could not find the main class: org/emboss/jemboss/Jemboss. Program will
exit.

I will appreciate very much if you can give me a hint.

Sincerely,

Xiao-Ping Zhang
UC Davis

Support for Phyml and RAxML sequence formats

Anonymous — Mon, 23 Jun 2008 07:41:40 -0000

Markus Göker wrote:
> Not as a further bug report, but as a request for an additional sequence
> format, I would like to ask whether you could include the format used by
> Phyml and RAxML in the next EMBOSS release. Both programs, particularly
> RAxML (http://icwww.epfl.ch/~stamatak/index-Dateien/Page443.htm), which
> is the fastest maximum likelihood program available, are used by an
> increasing number of researchers.
>
> The format is easy and quite close to PHYLIP format, except for the
> following features:
>
> * Sequence labels can be longer than 10 characters;
>
> * Sequence labels must not contain whitespace;
>
> * Whitespace (a newline also works) must separate the sequence label
> from the first nucleotide or amino acid;
>
> * For use with RAxML, sequences must not be interleaved.
>
> In the case you're interested, to illustrate this "extended PHYLIP
> format" or "EPF" I've attached a small example file.

Thanks. We will add it, but it may not be one we can allow by default so
you may have to put -sf phyml on the command line.

We need to check that it does not conflict with any other formats that
start with two numbers. The coding part is easy.

regards,

Peter Rice

Support for usage of associated qualifiers in ACD files

Anonymous — Thu, 10 Apr 2008 11:43:21 -0000

BACKGROUND:

Using EMBOSS-Explorer and trying to extend the automatically generated HTML form for any EMBOSS application to include data for associated qualifiers.

COMMANDLINE EXAMPLE:

needle full_length.seq fragment.seq -sbegin1 100

PROBLEM:

I cannot add a section named 'associated' (as compared to 'required' or 'advanced') and use qualifier names with containing numbers, e.g. 'sbegin1'. If I do acdvalid complains:

"... Bad or missiong qualifier alphabetic name 'sbegin1'"

Apparently, support for the 'associated' section is still not there? Although there seems to be a method ('acdParse' in addition to 'acdParseAlpha') in ajacd.c as far as I can see (as a non-C programmer...).

Problem using maskfeat

Jon Ison — Fri, 15 Feb 2008 14:24:35 -0000

Subject: [emboss-bug] gff options missing
From: "Daniela Puiu" <dpuiu@umiacs.umd.edu>
Date: Tue, January 15, 2008 2:56 pm
To: emboss-bug@emboss.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

Hello,

I was trying to use the -gff option mentioned in the EMBOSS online
documentation to mask certain regions of a sequence. Below are the
command and error message I got:

maskfeat -gff test.gff test.fasta
Died: Unknown qualifier -gff

Since there is no example given I was wondering if I used the option
correctly.

Regards,
Daniela.

--
Daniela Puiu
Bioinformatics Engineer
Center for Bioinformatics and Computational Biology
3104B Biomolecular Sciences Bldg
University of Maryland
College Park MD 20742
301.405.3403 (office)
301.314.1341 (fax)
dpuiu@umiacs.umd.edu

Sixpack question

Jon Ison — Fri, 15 Feb 2008 14:23:27 -0000

Subject: [emboss-bug] Sixpack question
From: mark.rose@syngenta.com
Date: Tue, January 8, 2008 9:05 pm
To: emboss-bug@emboss.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

Hello

I've been trying to use the EMBOSS sixpack program to identify (and
display them exclusively in the outfile) ORFs with a minimum size of 150
bases that begin with a ATG codon and, in addition to the standard
output in html format, also output in a file all ORFs meeting these
criteria.

I use the following command line (for example):

sixpack -sequence my_sequence_file -outfile testoutfile -mstart
-orfminsize 50 -auto -html -outseq testoutseq -highlight 1-10

What I get back in the outfile however shows all ORFs exceeding 50
encoded amino acids regardless of whether they begin with ATG (ORFs
starting with ATG only appear to be listed in the outseq file).

This is not the behavior I expected using the mstart flag. Am I doing
something wrong? Is there a way to achieve what I seek with this tool.

Thanks for your help

Mark

Dr. Mark Rose
Scientist III
Bioinformatics
Syngenta Biotechnology, Inc.
3054 Cornwallis Rd.
RTP, NC 27709
919-541-8579

Problems using phylip

Jon Ison — Fri, 15 Feb 2008 14:20:48 -0000

Subject: [emboss-bug] fprotdist bug
From: "Konstantinos Mavrommatis" <KMavrommatis@lbl.gov>
Date: Wed, January 30, 2008 2:21 am
To: emboss-bug@emboss.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

I recently started using EMBASSY software, specifically phylip in order
to create scripts that can perform phylogenetic analyses.
I have encountered the following problems with the program fneighbor:

Starting from a protein alignment I want to generate a neighbor joining tree

Create a distance matrix:

fprotdist -seq A.phy -outfile A.fprotdist

Create the tree:

fneighbor -datafile A.fprotdist -outfile A.fneighbor

returns the error:
Phylogenies from distance matrix by N-J or UPGMA method
Error: Distances file found 0 rows, expected 43
Error: Unable to read distances file 'A.fprotdist'
Died: fneighbor terminated: Bad value for '-datafile' and no prompt

One solution is to modify the A.fprodist file to contain all the data
refering to one sequence in one line
eg instead of

43
639887899 0.000000 0.253764 0.894950 1.166942 0.822729 0.835708
1.055086 1.060541 1.045885 1.141526 1.132539 1.165916 1.169457
639885466 0.253764 0.000000 0.864858 1.052793 0.780529 0.843314
1.111089 1.031371 1.085415 1.155807 1.187711 1.230084 1.227176

Make it :
43
639887899 0.000000 0.253764 0.894950 1.166942 0.822729 0.835708
1.055086 1.060541 1.045885 1.141526 1.132539 1.165916 1.169457
639885466 0.253764 0.000000 0.864858 1.052793 0.780529 0.843314
1.111089 1.031371 1.085415 1.155807 1.187711 1.230084 1.227176

Additionally, when I try to use multiple datasets (for bootstraps)
fprotdist does not work at all.

Best regards,

Mavrommatis, Konstantinos PhD
Genome Biology Program
DOE Joint Genome Institute
Tel: +1 925 296 5815
email: KMavrommatis@lbl.gov

Wordfinder in JEMBOSS

Anonymous — Thu, 31 Jan 2008 14:30:37 -0000

Subject: Re: [emboss-bug] Wordfinder program error in JEmboss
From: "Peter Rice" <pmr@ebi.ac.uk>
Date: Wed, January 30, 2008 6:06 pm
To: "Sukhaswami Malladi" <Sukhaswami_Malladi@hillspet.com>
Cc: emboss-bug@emboss.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

Dear Sukhaswami,

Sukhaswami Malladi wrote:
> Hello,
>
> I get the error "SW: Error walking left" when I run the Wordfinder
> program.
>
> Here is the screenshot.

This is an error in generating the alignments.

Can you send us the input sequences and any other options you used so we
can reproduce it from the command line.

Also, which version of EMBOSS were you using (embossversion reports this)

regards,

Peter Rice

degapseq crash when reading from stdin

Jon Ison — Tue, 23 Oct 2007 12:30:58 -0000

Subject: [EMBOSS] Bug in degapseq ?
From: "Charles Plessy" <charles-listes-emboss@plessy.org>
Date: Tue, October 9, 2007 12:38 am
To: emboss@emboss.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

Dear developpers,

If I use degaspeq on a file, it prompts me for the name of the output, but if
the data comes from stdin, degaspeq crashes. It does not happen if the name of
the output is given.

chouca〔~〕$ cat toto
>Xenopus-1a
-----MVLLKCEYRDEEEDLTS---ASPCSV--TSSFRSPAT----QTCSSDDEQLLSPT
SP--------------GQHQGEE---NS----------------------------PRCR
RSRGRA-QGKSGETVLKIKKTRRVKANNRERNRMHNLNSALDSLREVLPSLPEDAKLTKI
ETLRFAYNYIWALSETLRLGD-----P-VHRS--AS-----TPAAAI---LV---QDSSS
SQSP-----SWS--CSSSPSS-----S-------CCSFS--PASP----ASST--SDSIE
SWQ---PSELHLNPFMSASSA---FI----
>Xenopus-1b
-----MVLLKCEYRDEVSELTS---VSPCSVSSSSSHPSPAM----QTCSSDDEQLHSPT
SPTL-------THLQQGRDQGEE---NS----------------------------PRCR
RSRAR------GDTVLKIKKTRRVKANNRERNRMHHLNYALDSLREVLPSLPEDAKLTKI
ETLRFAHNYIWALSETLRLAD-----Q-LHGS--TS-----TPAAAI---LV---QDSYP
SLSP-----SWS--CSSSPSS----NS-------CDSFS--PTSP----ASST--SDSIE
YWQ---PSELRLNPFMSAL-----------
>Gallus-2
------MPVKAESPAPAAEDE--L-LLLRLASPAPSASLP-------SSAGEEDEDEEDG
RP-------------RRLQEGA----------------------------------RRAG
RQRGPPRAARTAETAQRIKRSRRLKANNRERNRMHNLNAALDALRDVLPTFPEDAKLTKI
ETLRFAHNYIWALTETLRL----AGAARLGGA--AD-A---APGAA-----A---EG-SP
SPAS-----SWS--GGASPAP-----SA---SPYACTLS--PGSP----AGSA--SD-AE
HW---PPPRGRFAPPPPPHR----CL----

chouca〔~〕$ cat toto | degapseq stdin
Removes gap characters from sequences
output sequence(s) [xenopus-1a.fasta]:
EMBOSS An error in ajmess.c at line 1662:
END-OF-FILE reading from user

chouca〔~〕$ cat toto | degapseq stdin stdout
Removes gap characters from sequences
>Xenopus-1a
MVLLKCEYRDEEEDLTSASPCSVTSSFRSPATQTCSSDDEQLLSPTSPGQHQGEENSPRC
RRSRGRAQGKSGETVLKIKKTRRVKANNRERNRMHNLNSALDSLREVLPSLPEDAKLTKI
ETLRFAYNYIWALSETLRLGDPVHRSASTPAAAILVQDSSSSQSPSWSCSSSPSSSCCSF
SPASPASSTSDSIESWQPSELHLNPFMSASSAFI
>Xenopus-1b
MVLLKCEYRDEVSELTSVSPCSVSSSSSHPSPAMQTCSSDDEQLHSPTSPTLTHLQQGRD
QGEENSPRCRRSRARGDTVLKIKKTRRVKANNRERNRMHHLNYALDSLREVLPSLPEDAK
LTKIETLRFAHNYIWALSETLRLADQLHGSTSTPAAAILVQDSYPSLSPSWSCSSSPSSN
SCDSFSPTSPASSTSDSIEYWQPSELRLNPFMSAL
>Gallus-2
MPVKAESPAPAAEDELLLLRLASPAPSASLPSSAGEEDEDEEDGRPRRLQEGARRAGRQR
GPPRAARTAETAQRIKRSRRLKANNRERNRMHNLNAALDALRDVLPTFPEDAKLTKIETL
RFAHNYIWALTETLRLAGAARLGGAADAAPGAAAEGSPSPASSWSGGASPAPSASPYACT
LSPGSPAGSASDAEHWPPPRGRFAPPPPPHRCL

chouca〔~〕$ degapseq toto
Removes gap characters from sequences
output sequence(s) [xenopus-1a.fasta]: stdout
>Xenopus-1a
MVLLKCEYRDEEEDLTSASPCSVTSSFRSPATQTCSSDDEQLLSPTSPGQHQGEENSPRC
RRSRGRAQGKSGETVLKIKKTRRVKANNRERNRMHNLNSALDSLREVLPSLPEDAKLTKI
ETLRFAYNYIWALSETLRLGDPVHRSASTPAAAILVQDSSSSQSPSWSCSSSPSSSCCSF
SPASPASSTSDSIESWQPSELHLNPFMSASSAFI
>Xenopus-1b
MVLLKCEYRDEVSELTSVSPCSVSSSSSHPSPAMQTCSSDDEQLHSPTSPTLTHLQQGRD
QGEENSPRCRRSRARGDTVLKIKKTRRVKANNRERNRMHHLNYALDSLREVLPSLPEDAK
LTKIETLRFAHNYIWALSETLRLADQLHGSTSTPAAAILVQDSYPSLSPSWSCSSSPSSN
SCDSFSPTSPASSTSDSIEYWQPSELRLNPFMSAL
>Gallus-2
MPVKAESPAPAAEDELLLLRLASPAPSASLPSSAGEEDEDEEDGRPRRLQEGARRAGRQR
GPPRAARTAETAQRIKRSRRLKANNRERNRMHNLNAALDALRDVLPTFPEDAKLTKIETL
RFAHNYIWALTETLRLAGAARLGGAADAAPGAAAEGSPSPASSWSGGASPAPSASPYACT
LSPGSPAGSASDAEHWPPPRGRFAPPPPPHRCL

Have a nice day,

--
Charles Plessy
http://charles.plessy.org
Wako, Saitama, Japan

Problem installing emboss on Linux Ubuntu

Jon Ison — Tue, 23 Oct 2007 12:30:05 -0000

Subject: [EMBOSS] plcore.c error when compiling
From: "Laurence Amilhat" <Laurence.Amilhat@toulouse.inra.fr>
Date: Thu, October 11, 2007 10:44 am
To: emboss@lists.open-bio.org
Priority: Normal
Options: View Full Header | View Printable Version

Dear Emboss users,

I am tryin to install emboss on Linux Ubuntu 7.04 Feisty Fawn
I downloaded the following tar.gz : EMBOSS-5.0.0.tar.gz
<ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-5.0.0.tar.gz>

I made the ./configure, (I have the grphics lib z, png and gd)
But when I maunch the make, I get the following message.
Does anyone have an idea why? Did I miss a lib or something?

Thank you for your help,

Best regards,

Laurence

plcore.c: In function 'int text2fci(const char*, unsigned char*,
unsigned char*)':
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c:459: error: initializer-string for array of chars is too long
plcore.c: In function 'void difilt(PLINT*, PLINT*, PLINT, PLINT*,
PLINT*, PLINT*, PLINT*)':
plcore.c:887: warning: converting to 'int' from 'PLFLT'
plcore.c:888: warning: converting to 'int' from 'PLFLT'
plcore.c:897: warning: converting to 'PLINT' from 'PLFLT'
plcore.c:899: warning: converting to 'PLINT' from 'PLFLT'
plcore.c:909: warning: converting to 'int' from 'PLFLT'
plcore.c:910: warning: converting to 'int' from 'PLFLT'
plcore.c:919: warning: converting to 'int' from 'PLFLT'
plcore.c:920: warning: converting to 'int' from 'PLFLT'
plcore.c: In function 'void sdifilt(short int*, short int*, PLINT,
PLINT*, PLINT*, PLINT*, PLINT*)':
plcore.c:946: warning: converting to 'short int' from 'PLFLT'
plcore.c:947: warning: converting to 'short int' from 'PLFLT'
plcore.c:955: warning: converting to 'short int' from 'PLFLT'
plcore.c:956: warning: converting to 'short int' from 'PLFLT'
plcore.c:966: warning: converting to 'short int' from 'PLFLT'
plcore.c:967: warning: converting to 'short int' from 'PLFLT'
plcore.c:976: warning: converting to 'short int' from 'PLFLT'
plcore.c:977: warning: converting to 'short int' from 'PLFLT'
plcore.c: In function 'void pldid2pc(PLFLT*, PLFLT*, PLFLT*, PLFLT*)':
plcore.c:1079: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcx(PLINT)'
plcore.c:1080: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcy(PLINT)'
plcore.c:1081: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcx(PLINT)'
plcore.c:1082: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcy(PLINT)'
plcore.c: In function 'void pldip2dc(PLFLT*, PLFLT*, PLFLT*, PLFLT*)':
plcore.c:1125: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcx(PLINT)'
plcore.c:1126: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcy(PLINT)'
plcore.c:1127: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcx(PLINT)'
plcore.c:1128: warning: passing 'PLFLT' for argument 1 to 'PLFLT
plP_pcdcy(PLINT)'
plcore.c: In function 'void calc_didev()':
plcore.c:1345: warning: converting to 'PLINT' from 'PLFLT'
plcore.c:1346: warning: converting to 'PLINT' from 'PLFLT'
plcore.c:1347: warning: converting to 'PLINT' from 'PLFLT'
plcore.c:1348: warning: converting to 'PLINT' from 'PLFLT'
plcore.c: In function 'void plP_setpxl(PLFLT, PLFLT)':
plcore.c:3264: warning: converting to 'PLINT' from 'double'
plcore.c:3265: warning: converting to 'PLINT' from 'double'
make[2]: *** [plcore.lo] Erreur 1
make[2]: quittant le répertoire « /tmp/EMBOSS-5.0.0/plplot »
make[1]: *** [all-recursive] Erreur 1
make[1]: quittant le répertoire « /tmp/EMBOSS-5.0.0/plplot »
make: *** [all-recursive] Erreur 1
Exit 2

--

= Laurence Amilhat INRA Toulouse 31326 Castanet-Tolosan =
= Tel: 33 5 61 28 53 34 Email: laurence.amilhat@toulouse.inra.fr =
====================================================================