In Matlab I'm plotting a matrix (let's call it M) using imagesc over an image using imshow. I would like M to have a degree of transparency so I can actually see the image below. This is what I'm doing:
imshow(img); hold on;
h = imagesc(M);
set(h,'AlphaData',0.4); % set transparency to 40%
However, the last line generates an error when running it on Linux. I've been trying to solve it but nothing seems to work. I wonder if there is an alternative to the "AlphaData" property to make it transparent. Thanks!
EDIT: I'm using Matlab R2014a and Java 1.7 on a Linux CentOS 6.6
As Luis Mendo suggested, I just needed to change the renderer. You can:
>get(gcf,'renderer'); % to see which render engine is Matlab using
>set(gcf,'renderer'); % to get a list with all the possible renderers in your machine
So, at least in Linux, to change the renderer it's necessary to start Matlab from terminal by calling it as:
matlab -softwareopengl
Once this is done, setting transparency in an specific plot, as shown in the description of the question, is possible.
Related
I am having trouble with using the python curses module for windows. I have used the wheel found here to get a script I had written on my mac to run on my desktop. For now, the script just displays a border around the window using the screen.border() method and another line across the whole width of the display. I displayed the bar across the screen using this:
dimensions = screen.getmaxyx()
screen.addstr(dimensions[0]/2, 0, "-"*dimensions[1])
I ran this in a loop, resetting dimensions each time and using getch to check for a curses.KEY_RRESIZE and then running screen.erase() to allow me to resize the window and the script will still work. When I ran this on windows after installing the wheel for python 3.7 (win32 because the amd64 one gave an error) I found that screen.getmaxyx() always returned the same value: the initial screen size, and never changed when I resized the window. I appreciate any help if anyone knows a way to fix this issue, or if I simply cannot use curses on windows, an alternative library for windows. Thank you!
Call resize_term(0, 0) after you get a KEY_RESIZE. (I’m not sure of the exact Python mapping.)
That ("on windows") is probably using PDCurses, which doesn't have a way to automatically update the screensize (e.g., as done with POSIX-based ncurses's SIGWINCH handler). Rather, it detects the window-size change and the application can call is_termresized to decide whether to tell the library to change the data structures to match using resize_term.
The python wrapper doesn't use that.
What I need to be able to do is to rotate a PDF clockwise or counter clockwise either programmatically or from the CLI.
I have spent considerable time researching and attempting to rotate PDFs with GhostScript (as GS is already installed for other reasons) to no avail, nothing seems result in any rotation.
I have looked into using pdftk but it requires java libraries, and I would rather not have java installed on the system.
We've even looked at modifying the PDF file ourselves, and we have had some success with this, but we haven't come across a reliable method that works for all PDFs.
So my #1 preference would be to achieve this with existing resources on the system.
My #2 preference would be to do a little modification to the existing system as possible to achieve this.
The server in question is using Linux (OpenSuse 11) with PHP 5.2 and I have Ghostscript 9.0 installed.
Any advice would be much appreciated.
You can use pdfpages LaTeX package
\documentclass{article}
\usepackage{pdfpages}
\begin{document}
\includepdf[angle=45]{document.pdf}
\end{document}
The LaTeX document above, compiled via pdflatex, produces a document rotated 45 degrees.
There are also tools (wrappers of pdfpages) like pdfjam that can be used directly from command line:
$ pdfjam --suffix rotated45 --angle 45 --fitpaper true document.pdf
There is a way to do this with ImageMagick, if that's available to you.
Example:
$ convert originalfile.pdf -rotate <cw_angle_degrees> newfile.pdf
Note, however, that since this is a raster-based rotation, there will (generally) be a noticeable loss of quality AND increase in filesize.
You haven't said how you are trying to do this with Ghostscript, but if you want to use the pdfwrite device you will need to set /AutoRotatePages=/None or it will rotate the final page so that the majorty of any real text is horizontal.
I need to crop Geotiff files without using command line GDAL. I am looking for a GUI based Geotiff or related file editor. I need to freely select any area to crop. I need to preserve lat long information so I can merge multiple Geotiff files. I would not mind converting Geotiff files to some other format and then crop and convert to Geotiff.
You need a desktop GIS. Qgis: http://www.qgis.org/ will do it along with a zillion other mappy things, or there's gvSIG, OpenJUMP, uDIG and others, see www.osgeo.org or search. Did I mention these are all free and open source?
Another idea is to use R, the statistics package. It can read in Geotiffs, plot them, allow selection from the graphics window, subsetting, and saving, but it is a programming language so a bit of typing is necessary. The process would be something like this:
r = raster("myraster.tiff")
plot(r)
bounds = locator(2) # you then click corners for cropping
c = crop(r,bounds) # might be 'extract' or 'mask' or something...
plot(c)
writeRaster(c,"clipped.tiff")
Excuse the vagueness.
For those who may be interested, we have started to work on an open source GUI utility, Rasterix, using GDAL and the Qt framework.
It can perform some of the tasks already implemented in several GDAL command line utilities for raster processing, but using a friendly graphical user interface.
The complete source code and the pre-built binaries for Windows, Linux and macOS are hosted on github at https://github.com/mogasw/rasterix.
We will add more features in the future, but should you be interested in something in particular, please let us know using github's issues.
Currently, I use print -dpng foo.png to print a plot to file in Octave 3.0.1 on Ubuntu.
Sometimes, I generate thousands of images in a loop.
Whenever a new image pops up, it grabs the mouse control precluding me from multitasking.
Is there anyway to print silently or quietly?
It would be easier to answer your question with a little more information about what you are doing. But with a little guessing maybe this is what you need:
f = figure
set(f, "visible", "off")
plot([1,2,3,4])
print("MyPNG.png", "-dpng")
I'm a newbie to both R and LaTeX and have just recently found how to plot a standard time series graph using R and save it as a png image. What I'm worried about is that saving it as an image and then embedding it into LaTeX is going to scale it and make it look ugly.
Is there a way to make R's plot() function output a vector graphic and embed that into LaTeX? I'm a total beginner in both so please be gentle :) Code snippets are highly appreciated!
I would recommend the tikzDevice package for producing output for inclusion in LaTeX documents:
http://cran.r-project.org/web/packages/tikzDevice/index.html
The tikzDevice converts graphics produced in R to code that can be interpreted by the LaTeX package tikz. TikZ provides a very nice vector drawing system for LaTeX. Some good examples of TikZ output are located at:
http://www.texample.net/
The tikzDevice may be used like any other R graphics device:
require( tikzDevice )
tikz( 'myPlot.tex' )
plot( 1, 1, main = '\\LaTex\\ is $\\int e^{xy}$' )
dev.off()
Note that the backslashes in LaTeX macros must be doubled as R interprets a single backslash as an escape character. To use the plot in a LaTeX document, simply include it:
\include{path/to/myPlot.tex}
The pgfSweave package contains Sweave functionality that can handle the above step for you. Make sure that your document contains \usepackage{tikz} somewhere in the LaTeX preamble.
http://cran.r-project.org/
The advantages of tikz() function as compared to pdf() are:
The font of labels and captions in your figures always matches the font used in your LaTeX document. This provides a unified look to your document.
You have all the power of the LaTeX typesetter available for creating mathematical annotation and can use arbitrary LaTeX code in your figure text.
Disadvantages of the tikz() function are:
It does not scale well to handle plots with lots of components. These are things such as persp() plots of large matricies. The shear number of graphic elements can cause LaTeX to slow to a crawl or run out of memory.
The package is currently flagged as beta. This means that the interface or functionality of the package is subject to change if the authors find a compelling reason to do so.
I should end this post by disclaiming that I am an author of both the tikzDevice and pgfSweave packages so my opinion may be biased. However, I have used both packages to produce several academic reports in the last year and have been very satisfied with the results.
Shane is spot-on, you do want Sweave. Eventually.
As a newbie, you may better off separating task though. For that, do this:
open a device: pdf("figures/myfile.pdf", height=6, width=6).
plot your R object: plot(1:10, type='l', main='boring') -- and remember that lattice and ggplot need an explicit print around plot.
important: close your device: dev.off() to finalize the file.
optional: inspect the pdf file.
in LaTeX, use usepackage{graphicx} in the document header, use
\includegraphics[width=0.98\textwidth]{figures/myfile} to include the figure created earlier and note that file extension is optional.
run this through pdflatex and enjoy.
You might want to consider using Sweave. There is a lot of great documentation available for this on the Sweave website (and elsewhere). It has very simple syntax: just put your R code between <<>>= and #.
Here's a simple example that ends up looking like this:
\documentclass[a4paper]{article}
\title{Sweave Example 1}
\author{Friedrich Leisch}
\begin{document}
\maketitle
In this example we embed parts of the examples from the
\texttt{kruskal.test} help page into a \LaTeX{} document:
<<>>=
data(airquality)
library(ctest)
kruskal.test(Ozone ~ Month, data = airquality)
#
which shows that the location parameter of the Ozone
distribution varies significantly from month to month. Finally we
include a boxplot of the data:
\begin{center}
<<fig=TRUE,echo=FALSE>>=
boxplot(Ozone ~ Month, data = airquality)
#
\end{center}
\end{document}
To build the document, you can just call R CMD Sweave file.Rnw or run Sweave(file) from within R.
This is a dupe of a question on SO that I can't find.
But:
http://r-forge.r-project.org/projects/tikzdevice/ -- tikz output from r
and
http://www.rforge.net/pgfSweave/ tikz code via sweave.
Using tikz will give you a look consistent with the rest of your document, plus it will use latex to typeset all the text in your graphs.
EDIT
Getting LaTeX into R Plots