Hello,
The suggested changes have been made to the bar chart tool, and are
available in the changeset 2522:789741370e80.
Thanks for using Galaxy,
Guru
Galaxy team.
On Aug 3, 2009, at 8:55 AM, Matthew Eldridge wrote:
Hi Pieter,
Perhaps you already had a response about this, but if not I also
get a similar error with gnuplot trying to open an X11 display. I
fixed this by adding the following line to tools/plotting/
bar_chart.py right at the bottom of the file just before the call
to main:
Gnuplot.gp.GnuplotOpts.default_term = 'png'
The other thing I noticed about the bar chart tool is that it seems
to be configured in bar_chart.xml to output a PDF file when in fact
it produces a PNG image so I had to fix that also.
Kind regards
Matt
2009/7/29 Pieter Neerincx <pieter.neerincx(a)gmail.com>
Hi,
The bar chart generator does not work for me. It looks like gnuplot
is complaining (see below or attached screenshot), but I'm not sure
if this is the problem. I'm on CentOS 5.3 and have gnuplot version
4.0.0-14.el5. In addition I installed gnuplot-py 1.8. How do I fix
this?
Cheers,
Pi
gnuplot> set style histogram clustered gap 5 title offset character
0, 0, 0 ^ line 0: expecting 'data', 'function', 'line',
'fill' or
'arrow' line 0: undefined variable: in line 0: undefined variable:
invert
gnuplot> set style data histograms ^ line 0: expecting 'lines',
'points', 'linespoints', 'dots', 'impulses',
'yerrorbars',
'xerrorbars', 'xyerrorbars', 'steps', 'fsteps',
'histeps',
'filledcurves', 'boxes', 'boxerrorbars',
'boxxyerrorbars',
'vectors', 'financebars', 'candlesticks', 'errorlines',
'xerrorlines', 'yerrorlines', 'xyerrorlines', 'pm3d'
gnuplot: unable to open display 'localhost:13.0'
gnuplot: X11 aborted.
-------------------------------------------------------------
Biomolecular Mass Spectrometry and Proteomics
Utrecht University
Visiting address:
H.R. Kruyt building room O607
Padualaan 8
3584 CH Utrecht
The Netherlands
Mail address:
P.O. box 80.082
3508 TB Utrecht
The Netherlands
phone: +31 (0)6-143 66 783
email: pieter.neerincx(a)gmail.com
skype: pieter.online
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Guruprasad Ananda
Graduate Student
Bioinformatics and Genomics
The Pennsylvania State University