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Friday, September 18, 2015

pdfcrop with margins



http://askubuntu.com/questions/124692/command-line-tool-to-crop-pdf-files

If you wish to crop a pdf with left, top, right and bottom margins of 5, 10, 20, and 30 pt (points), then run
pdfcrop --margins '5 10 20 30' input.pdf output.pdf
in terminal. To actually crop something away, use negative values in the argument for crop. For example,
pdfcrop --margins '-50 -50 -50 -50' input.pdf output.pdf
crops 50 pts from the left, top, right, bottom (in this order).
If you run only the command pdfcrop input, it will output a file titled input-crop.pdf with zero margins. I find this very handy when including pdf illustrations in documents.
Cropping multiple files
Unfortunately, pdfcrop cannot crop multiple files at the time. It is however easy to write a script that will crop all pdfs in the folder the script is located in.
Create a new empty file, and call it something.sh. Open it with a text editor and insert the following:
#!/bin/bash

for FILE in ./*.pdf; do
  pdfcrop "${FILE}"
done
Save it, and close. Then right click the file, go to Properties > Permissions and check the field Allow executing file as program. Now close the dialog. Run the script by double clicking it and choosingRun in Terminal. And new, zero-margin cropped version of all pdfs with suffix -crop will now be printed in the folder. If you want margins or other things, you can of course just open the script and add arguments after pdfcrop.

Saturday, September 12, 2015

linear regression matlab script

function [p,Rsq] = LinearRegression (Xin,Yin)
% LinearRegression example
% x=0:1:9;
% y=3.0 * x + 7 + rand(1,length(x)) ;
% [p,Rsq] = LinearRegression (x,y) ;
% yfit = p(1)*x + p(2) ;
% plot(x,y,"o",x,yfit) ;
p = polyfit(Xin,Yin,1);
Yfit =  p(1) * Xin + p(2);
Yresid = Yin - Yfit;
SSresid = sum(Yresid.^2);
SStotal = (length(Yin)-1) * var(Yin);
Rsq = 1 - SSresid/SStotal;

Wednesday, September 9, 2015

lyx shortcuts


https://pepebioinformatics.wordpress.com/2014/03/06/lyx-keyboard-shortcuts/

LyX Keyboard Shortcuts

  1. ⇧ + ⌘ + L -> Insert Label (label-insert);
  2. ⌘ + L -> Insert ERT (ert-insert);
  3. ⇧ + ⌘ + G -> Insert Graphic (dialog-show-new-inset graphics);
  4. ⇧ + ⌘ + FF -> Insert FloatFigure (float-insert figure);
  5. ⇧ + ⌘ + FT -> Insert FloatTable (float-insert table);
  6. ⇧ + ⌘ + P -> Typewriter font;
  7. ⇧ + ⌘ + C -> Insert Cross-reference (dialog-show-new-inset ref);
  8. ^ + A + [C, L or R] -> paragraph-params \align Center, Left or Right;
  9. ⌘ + E -> Italic (font-emph);
  10. ⌘ + B -> Bold (font-bold);
  11. ⌘ + M -> Insert Math (math-mode);
  12. ⌘ + ⇧ + R -> Refresh Run
  13. ⌘ + R -> Run
  14. ^ + P + [*] + [234]; layout [without numbers] [S/SubS/SubSubS]

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