genpept file

genpept file

LOCUS       AFN94075                 179 aa            linear   BCT 16-SEP-2013
DEFINITION  BcrA [Listeria monocytogenes].
ACCESSION   AFN94075
VERSION     AFN94075.1
DBSOURCE    accession JX023279.1
KEYWORDS    .
SOURCE      Listeria monocytogenes
  ORGANISM  Listeria monocytogenes
            Bacteria; Firmicutes; Bacilli; Bacillales; Listeriaceae; Listeria.
REFERENCE   1  (residues 1 to 179)
  AUTHORS   Dutta,V., Elhanafi,D. and Kathariou,S.
  TITLE     Conservation and Distribution of the Benzalkonium Chloride
            Resistance Cassette bcrABC in Listeria monocytogenes
  JOURNAL   Appl. Environ. Microbiol. 79 (19), 6067-6074 (2013)
   PUBMED   23892748
REFERENCE   2  (residues 1 to 179)
  AUTHORS   Dutta,V., Elhanafi,D., Siletzky,R.M. and Kathariou,S.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAY-2012) Food Science, NCSU, Schaub Hall, Raleigh,
            NC 27695, USA
FEATURES             Location/Qualifiers
     source          1..179
                     /organism="Listeria monocytogenes"
                     /strain="210B"
                     /serotype="1/2b, 3b"
                     /isolation_source="food processing plant"
                     /db_xref="taxon:1639"
                     /PCR_primers="fwd_name: bcf2, fwd_seq:
                     gactggatccgattctggaacatccctatc, rev_name: bcr, rev_seq:
                     gtatgaattcgtataatccggatgctgccc"
     Protein         1..179
                     /product="BcrA"
                     /name="TetR family of transcriptional regulators"
     Region          1..172
                     /region_name="AcrR"
                     /note="DNA-binding transcriptional regulator, AcrR family
                     [Transcription]; COG1309"
                     /db_xref="CDD:224228"
     Region          12..58
                     /region_name="TetR_N"
                     /note="Bacterial regulatory proteins, tetR family;
                     pfam00440"
                     /db_xref="CDD:278848"
     CDS             1..179
                     /gene="bcrA"
                     /coded_by="JX023279.1:106..645"
                     /transl_table=11
ORIGIN
        1 msakkqdkra hllnaaiell gsndfdtltl eavakqanvs kggllyhfps kealyagite
       61 lifqdfvyrf nelaendpie kgkwtralih aytddlnnsq vlniashsfs klnptvteni
      121 lvhfeyiqsk idedgidsvl attirltldg lyyseffklg qinfdlreki iekliestt
//

error: pathspec 'samples/BcrA.gp' did not match any file(s) known to git


ITER Demo folder: Add plt file to TEST-BEAUTY project

<?xml version="1.0" encoding="UTF-8" standalone="yes"?>
<databrowser>
    <title>
        <text>Beauty Plot</text>
        <color>
            <red>0</red>
            <green>0</green>
            <blue>255</blue>
        </color>
        1|Sans|12.0|1|GTK|1|
    </title>
    <graph_settings>
        <show_title>true</show_title>
        <show_legend>true</show_legend>
        <show_plot_area_border>false</show_plot_area_border>
        <transparent>false</transparent>
    </graph_settings>
    <scroll>true</scroll>
    <update_period>3.0</update_period>
    <start>-1 hours 0.0 seconds</start>
    <end>now</end>
    <time_axis>
        <axis>
            <name>Time</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>0</red>
                <green>0</green>
                <blue>0</blue>
            </color>
            <min>1.36628927793E12</min>
            <max>1.36629287793E12</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>true</time_format>
                <format_pattern>HH:mm</format_pattern>
            </format>
        </axis>
    </time_axis>
    <background>
        <red>255</red>
        <green>255</green>
        <blue>255</blue>
    </background>
    <archive_rescale>NONE</archive_rescale>
    <axes>
        <axis>
            <name>TEST-BTY0:AIn</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>21</red>
                <green>21</green>
                <blue>196</blue>
            </color>
            <min>0.0</min>
            <max>108.49089341573206</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
        <axis>
            <name>TEST-BTY0:RAMP1</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>139</red>
                <green>105</green>
                <blue>20</blue>
            </color>
            <min>-1.0000321507591365</min>
            <max>100.0</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
        <axis>
            <name>TEST-BTY0:RAMP2</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>160</red>
                <green>32</green>
                <blue>240</blue>
            </color>
            <min>-1.0000321507591365</min>
            <max>100.0</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
    </axes>
    <annotations>
    </annotations>
    <pvlist>
        <pv>
            <name>TEST-BTY0:AI1</name>
            <display_name>TEST-BTY0:AI1</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>21</red>
                <green>21</green>
                <blue>196</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:AI2</name>
            <display_name>TEST-BTY0:AI2</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>242</red>
                <green>26</green>
                <blue>26</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:AI3</name>
            <display_name>TEST-BTY0:AI3</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>66</red>
                <green>177</green>
                <blue>66</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:RAMP1</name>
            <display_name>TEST-BTY0:RAMP1</display_name>
            <visible>true</visible>
            <axis>1</axis>
            <linewidth>2</linewidth>
            <color>
                <red>139</red>
                <green>105</green>
                <blue>20</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:RAMP2</name>
            <display_name>TEST-BTY0:RAMP2</display_name>
            <visible>true</visible>
            <axis>2</axis>
            <linewidth>2</linewidth>
            <color>
                <red>128</red>
                <green>0</green>
                <blue>255</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
    </pvlist>
</databrowser>

error: pathspec 'products/ITER/products/org.csstudio.iter.archive.engine.product/demo/m-TEST-BEAUTY/src/main/databrowser/bty0.plt' did not match any file(s) known to git


Starting to generate GNUPlot diagrams.

Starting to generate GNUPlot diagrams.

Scripting them all, to make them reproducible and documented.

set output "FlatnessContributionsRatio.pdf"
set term pdf
col = 5
plot \
"/tmp/VTKGitAnalysis.txt" using 1:col with lines title "VTK", \
"/tmp/ITKGitAnalysis.txt" using 1:col with lines title "ITK", \
"/tmp/LinuxKernelGitAnalysis.txt" using 1:col with lines title "Linux Kernel", \
"/tmp/FirefoxGitAnalysis.txt" using 1:col with lines title "Firefox"

error: pathspec 'RevisionControl/Gnuplot/FlatnessContributionsRatio.gnuplot' did not match any file(s) known to git


Example gnuplot

Example gnuplot

#!/usr/bin/env gnuplot

# output of ToTsv
input = 'example.tsv'
set datafile separator '\t'

set terminal svg enhanced mouse standalone size 1280,960
set output 'example.svg'

# to output png instead
#set terminal pngcairo size 2280,960
#set output 'gc-pain-se1.png'

set xdata time
set timefmt '%Y-%m-%d %H:%M:%S'
#set format x '%Y-%m-%d %H:%M:%S'
set format x '%Y-%m-%d'
set lmargin 10
set multiplot layout 2,1

set title 'Pause time (s)'
plot for [i=2:2] input using 1:i w lines lt i t column(i)

set title 'Heap sizes'
set format y '%.1t %c'
plot for [i=3:5] input using 1:i w lines lt i t column(i)

error: pathspec 'src/main/scripts/plot.gp' did not match any file(s) known to git


gnuplot script.

gnuplot script.

set output 'mem.png'
set term png
set key box left
set xlabel "Time (msec)"
set ylabel "Mem (MB)"
plot "mem.dat" using 1:($2/1e6) title 'HeapSys' with lines, "mem.dat" using 1:($3/1e6) title 'HeapAlloc' with lines, "mem.dat" using 1:($4/1e6) title 'HeapIdle' with lines

error: pathspec 'mem.gp' did not match any file(s) known to git


gnuplot

gnuplot

set encoding utf8
set xlabel "Rank"
set ylabel "Frequency"
set grid

## liczba słów
b = 160

## plik z danymi: rank frequency
FILE = 'gsm.freq'

## katalog z obrazkami

set xrange [1:b]

f1(x) = a/x
fit f1(x) FILE using 0:1 via a

set terminal png size 1000,600 enhanced font 'Verdana,10'

set output 'z03_zipf.png'
plot FILE with points lt 2 lw 1 lc rgb "#000000" notitle,\
0 <= x && x <= b ? f1(x) : 1/0 notitle

set output 'z03_zipf-log.png'
set logscale xy
plot FILE with points lt 2 lw 1 lc rgb "#000000" notitle,\
0 <= x && x <= b ? f1(x) : 1/0 notitle
set nologscale xy

f2(x) = P/((x+d)**B)
P = 10000
#d = 1
#B=0.00001
fit f2(x) FILE using 0:1 via P, d, B

set output 'z03_mandelbrot.png'
plot FILE with points lt 2 lw 1 lc rgb "#000000" notitle,\
0 <= x && x <= b ? f2(x) : 1/0 notitle

set output 'z03_mandelbrot-log.png'
set logscale xy
plot FILE with points lt 2 lw 1 lc rgb "#000000" notitle,\
0 <= x && x <= b ? f2(x) : 1/0 notitle
set nologscale xy

error: pathspec 'z03_zipf.gnuplot' did not match any file(s) known to git


Pari/GP script for examining distribution and avarage exponents of small
primes dividing the group order of curves.

git-svn-id: 189946a10c5fc96e9dd03ba7cba917cd4c3d09f4@58 de4796e2-0b1e-0410-91b4-86bc23549317

fatal: unable to access 'https://github.com/mancoast/cado-nfs.git/': The requested URL returned error: 403


Create a gnuplot script for filter

Create a gnuplot script for filter

set datafile separator ','
set key top left
set terminal pngcairo size 750,560

color = "forest-green"

set output "../assets/filter.png"
plot [2905:2985] "../assets/filter.csv" using 1:2 title "filtered" linecolor color

error: pathspec 'rust-showcase/plots/filter.gp' did not match any file(s) known to git


Added plot file for l5b6

Added plot file for l5b6

git-svn-id: b233c5b81dcfbfdfca783093b3213ccfd2356b3a@551 3eb578c0-666c-0410-8428-3510748880ad

fatal: unable to access 'https://github.com/AlexSzatmary/bake.git/': The requested URL returned error: 403


removed my_plt.plt

removed my_plt.plt

git-svn-id: 5a8631614469a9cf56b0b25e8d137334932880e2@5 8d0196c9-3e4a-4e7a-a3a7-6d0e369fd2f0

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/riak-synrc/sext.git/'


Gnuplot script for heads-up display, quick overview of simulation values.

git-svn-id: b233c5b81dcfbfdfca783093b3213ccfd2356b3a@793 3eb578c0-666c-0410-8428-3510748880ad

# A heads-up display of lots of variables for one run.

set multiplot
set size 0.5, 1./3.
set origin 0., 2./3.
plot './capsulex__00001.txt' u 1:2 w l t 'x', './capsulex__00001.txt' u 1:3 w l t 'y', './capsulex__00001.txt' u 1:4 w l t 'z'
set origin 0., 1./3.
plot 'TaylorDF__00001.txt' w l t 'DF'
set origin 0., 0.
plot 'TaylorDF__00001.txt' u 1:3 w l t 'rmin', 'TaylorDF__00001.txt' u 1:4 w l t 'rmax', 'minmaxx___00001.txt' w l t 'min x', 'minmaxx___00001.txt' u 1:3 w l t 'max x', 'minmaxy___00001.txt' w l t 'min y', 'minmaxy___00001.txt' u 1:3 w l t 'max y', 'minmaxz___00001.txt' w l t 'min z', 'minmaxz___00001.txt' u 1:3 w l t 'max z'
set origin 0.5, 2./3.
plot 'lambda1___00001.txt' w l t 'min(l_1)', 'lambda1___00001.txt' u 1:3 w l t 'max(l_1)', 'lambda2___00001.txt' w l t 'min(l_2)', 'lambda2___00001.txt' u 1:3 w l t 'max(l_2)'
set origin 0.5, 1./3.
plot 'meanfluidv.txt' w l t 'u', 'meanfluidv.txt' u 1:3 w l t 'v', 'meanfluidv.txt' u 1:4 w l t 'w'
set origin 0.5, 0.
plot 'meanforce.txt' w l t 'fx', 'meanforce.txt' u 1:3 w l t 'fy', 'meanforce.txt' u 1:4 w l t 'fz'

set nomultiplot
pause -1 "Type return to continue"

error: pathspec 'gnuplot_scripts/hud.plt' did not match any file(s) known to git


Add commands for gnuplot

Add commands for gnuplot

reset
set datafile separator ","

# Get the mean and standard deviation
plot './stats.csv' using 0:4
set yrange [0:4]
f(x) = mean_y
fit f(x) './stats.csv' u 0:4 via mean_y
stddev_y = sqrt(FIT_WSSR / (FIT_NDF + 1 ))

# Plot the chart
set autoscale
set ylabel 'Response Time (ms)'
set title 'uzERP Locust Run, Finished: '.strftime("%a %b %d %H:%M:%S %Y", time(0))
plot './stats.csv' u 0:4 w p pt 7 lt 1 ps 1 notitle, \
mean_y title gprintf("Mean = %g", mean_y), \
stddev_y*3 title gprintf("3 x Std. dev. = %g", stddev_y*3)

error: pathspec 'utils/gnuplot/chart.plt' did not match any file(s) known to git


Erzeugen der Graphen

Erzeugen der Graphen

gnuplot -persist weak_scaling_ja.plt
gnuplot -persist weak_scaling_ja_speedup.plt
gnuplot -persist strong_scaling_ja.plt
gnuplot -persist communication_ja.plt

error: pathspec 'Blatt10/speedup.gnuplot' did not match any file(s) known to git


FIX tools: a script to plot frequency distribution

This is a simple script to plot a histogram given the latency data stored in a
file. You can use it as follows:

$ ./tools/fix/fix_client -n 1000 -o out.csv -m order -p 9000 -h localhost
Client Logon OK
Messages sent: 1000
Round-trip time: min/avg/max = 101.0/188.9/14801.0 μs
Client Logout OK

$ gnuplot -e "file='out.csv'" -e "width=10" -e "max=1000" tools/fix/frequency.gp

Signed-off-by: Marat Stanichenko <146c4a279a7427b2cc19a19b6130cbb7ee404ab1@gmail.com>
[ penberg: Use "round-trip time" for the x-axis label. ]
Signed-off-by: Pekka Enberg <add4fcd06328a394f0ad91feda7ee057316dc5ed@iki.fi>

reset

set terminal unknown

plot file
xmin = GPVAL_DATA_Y_MIN
xmax = GPVAL_DATA_Y_MAX

round(x, width) = width * floor(x / width) + width / 2.0

set terminal postscript eps enhanced
set output "histogram.eps"

xmax = max > 0 ? max : xmax

set xrange [xmin:xmax]
set yrange [0:]

set xtics 0, 50, xmax
set xtics font ",8"
set ytics font ",8"

set xlabel "Round-trip time ({/Symbol m}s)"
set ylabel "Frequency"
set xlabel font ",8"
set ylabel font ",8"

plot file using (round($1, width)):(1.0) smooth freq w boxes lc rgb"blue" notitle

error: pathspec 'tools/fix/frequency.gp' did not match any file(s) known to git


new plot file testing extra linecolors

new plot file testing extra linecolors

git-svn-id: 0ef30dc7da0b07cedfa074587325a6c153c0ae55@10527 fdbf22ae-c210-0410-be80-ca943da6b8f8

error: pathspec 'bench/metafile_masters_v61/linecolors.plt' did not match any file(s) known to git


initial checkin

initial checkin

git-svn-id: 0ef30dc7da0b07cedfa074587325a6c153c0ae55@8973 fdbf22ae-c210-0410-be80-ca943da6b8f8

fatal: unable to access 'https://github.com/NOAA-PMEL/PyFerret.git/': The requested URL returned error: 403


new plot file

new plot file

git-svn-id: 0ef30dc7da0b07cedfa074587325a6c153c0ae55@10539 fdbf22ae-c210-0410-be80-ca943da6b8f8

error: pathspec 'bench/metafile_masters_v61_64/linecolors.plt' did not match any file(s) known to git


Plotting the results!

Plotting the results!

set style line 80 lt rgb "#000000"

# Line style for grid
#set style line 81 lt 0  # dashed
#set style line 81 lt rgb "#808080"  # grey

#set grid back linestyle 81
set border 3 back linestyle 80 # Remove border on top and right.  These
             # borders are useless and make it harder
             # to see plotted lines near the border.
    # Also, put it in grey; no need for so much emphasis on a border.
set xtics nomirror
set ytics nomirror

set style line 1 lt rgb "#A00000" lw 4 pt 1 ps 0.5
set style line 2 lt rgb "#00A000" lw 4 pt 5 ps 0.5
set style line 3 lt rgb "#5060D0" lw 4 pt 7 ps 0.5
set style line 4 lt rgb "#FF1493" lw 4 pt 9 ps 0.5
set style line 5 lt rgb "red" lw 4 pt 11 ps 0.5
set style line 6 lt rgb "#808000" lw 4 pt 13 ps 0.5
set style line 7 lt rgb "#00008B" lw 4 pt 15 ps 0.5
set style line 8 lt rgb "#800080" lw 4 pt 21 ps 0.5
set style line 9 lt rgb "black" lw 4 pt 63 ps 0.5
set style line 10 lt rgb "blue" lw 4 pt 28 ps 0.5
set style line 11 lt rgb "violet" lw 4 pt 44 ps 0.5
set style line 81 lt 0  # dashed
set style line 81 lt rgb "#808080"  # grey

set grid back linestyle 81
#set xtics 2
#set ytics 1
set term pdfcairo
#fontscale 0.8

set out "ratiobitpacking.pdf"

set xlabel "Ratio length (large list) / length(small list)"
set ylabel "relative speed (scalar = 1)"
#set ylabel "relative speed (galloping = 1)"

set key bmargin
set key samplen 2 spacing .5 font ",8" maxrows 4
#set xrange [1:8192]
set xrange [1:10000]
set logscale x 2

set logscale y 2

set out "benchintersection5march2014_gallop.pdf"
#set logscale x 2
#set logscale y

plot "benchintersection5march2014.txt" using 1:($13/$3) ti "gallop" with linespoints lw 2 ps 0.5,\
"" using 1:($21/$3) ti "SIMD gallop" with linespoints lw 2 ps 0.5,\
"" using 1:($22/$3) ti "SIMD gallop2" with linespoints lw 2 ps 0.5,\
"" using 1:($25/$3) ti "Wu SIMD gallop v0" with linespoints lw 2 ps 0.5,\
"" using 1:($26/$3) ti "Wu SIMD gallop v1" with linespoints lw 2 ps 0.5,\
"" using 1:($27/$3) ti "Wu SIMD gallop v2" with linespoints lw 2 ps 0.5,\
"" using 1:($28/$3) ti "Wu SIMD gallop v3" with linespoints lw 2 ps 0.5

set out "benchintersection5march2014_v1.pdf"

plot "benchintersection5march2014.txt" using 1:($34/$3) ti "SIMD v1" with linespoints lw 2 ps 0.5,\
"" using 1:($29/$3) ti "Wu SIMD v1" with linespoints lw 2 ps 0.5,\
"" using 1:($30/$3) ti "Wu SIMD v1 plow" with linespoints lw 2 ps 0.5

set out "benchintersection5march2014_v3.pdf"

plot "benchintersection5march2014.txt" using 1:($35/$3) ti "SIMD v3" with linespoints lw 2 ps 0.5,\
"" using 1:($32/$3) ti "Wu SIMD v3" with linespoints lw 2 ps 0.5,\
"" using 1:($33/$3) ti "Wu SIMD v3 aligned" with linespoints lw 2 ps 0.5

error: pathspec 'results/benchintersection5march2014.gnuplot' did not match any file(s) known to git


initial commit 2011 code

initial commit 2011 code

fatal: unable to access 'https://github.com/pascalmolin/hcperiods.git/': The requested URL returned error: 403


Create plotter.gnuplot

Create plotter.gnuplot

plot "A01.DAT" u 1:($2-1700) w l, "A02.DAT" u 1:($2*0.8) w l , "A01.DAT" u ($1-116):(($2-1750)*(-1.16)) w l
set term postscript
set output "posA_test.ps"
replot
set term x11

plot "B01.DAT" u 1:($2-1700) w l, "B02.DAT" u 1:($2*0.8) w l , "B01.DAT" u ($1-116):(($2-1750)*(-1.16)) w l
set term postscript
set output "posB_test.ps"
replot
set term x11
#ps2pdf posA_test.ps posA_test.pdf
#ps2pdf posB_test.ps posB_test.pdf

error: pathspec 'plotter.gnuplot' did not match any file(s) known to git


Simple gnuplot script.

Simple gnuplot script.

plot "data.dat" with lines
pause 1
reread

error: pathspec 'test/plot.gnu' did not match any file(s) known to git


gnuplot performance graph template

gnuplot performance graph template

#This is a gnuplot file used for plotting performance test result graphs

set term png
set out "picname.png"
set data style boxes
set style fill solid border -1
set logscale xy
set yrange [1:100000]
set xrange [1:1000000]
set style fill solid 1.0
set boxwidth 0.10
set title "Throughput in msg/sec(cluster of 8 machines,fc-fast-minimalthreads.xml,JGroups 2.3)"
set xlabel "Message size"
set ylabel "Number of messages per sec"
set xtics ("100B" 100,"1K" 1000, "10K" 10000, "100K" 100000)
plot "perfdata.dat" using ($1):($2) lt rgb "#6495ED" t "1 sender",\
"perfdata.dat" using ($1*1.27):($3) lt rgb "#BA55D3" t "4 senders",\
"perfdata.dat" using ($1*1.63):($4) lt rgb "#FFF8DC" t "8 senders"

#where perfdata.dat looks something like this

#100		29754	30873	27161
#1000		15886	11354	15918
#10000	2013	314	624
#100000 	183	77	54

error: pathspec 'doc/perfgraph.plt' did not match any file(s) known to git


GNUplot file for result.

GNUplot file for result.

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/vtomole/SICL.git/'


Roots mod p^k with polrootspadic() simply does not work the way I thought it
would. Currently disabled.

git-svn-id: 189946a10c5fc96e9dd03ba7cba917cd4c3d09f4@95 de4796e2-0b1e-0410-91b4-86bc23549317

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/mancoast/cado-nfs.git/'


Upate diagrams.

Upate diagrams.

error: pathspec 'org.jenetics.tool/src/main/resources/org/jenetics/tool/evaluation/generation_population_size.gp' did not match any file(s) known to git


Forgot to add.

Forgot to add.

:- include(misc(common)).

%%  bytes_to_float(
%       +B0:byte, +B1:byte, +B2:byte, +B3:byte,
%       +B4:byte, +B5:byte, +B6:byte, +B7:byte,
%       ?Float:float) is det.
%
%   True if Float is the floating point number represented by the
%   consecutive bytes (0..255) B0..B7 interpreted as a 64-bit
%   IEEE 754 double.
%
%   Implemented in foreign library.

:- begin_tests('bson_bits:bytes_to_float/9').

test('zero', [true(Got == Expected)]) :-
    Expected = 0.0,
    bson_bits:bytes_to_float(0,0,0,0, 0,0,0,0, Got).

test('neg', [true(Got == Expected)]) :-
    Expected = -5.05,
    bson_bits:bytes_to_float(51,51,51,51, 51,51,20,192, Got).

test('pos', [true(Got == Expected)]) :-
    Expected = 5.05,
    bson_bits:bytes_to_float(51,51,51,51, 51,51,20,64, Got).

:- end_tests('bson_bits:bytes_to_float/9').

%%  bytes_to_integer(
%       +B0:byte, +B1:byte, +B2:byte, +B3:byte,
%       ?Integer:int) is det.
%
%   True if Integer is the integer represented by the consecutive
%   bytes (0..255) B0..B3 interpreted as a 32-bit little-endian integer.
%
%   Implemented in foreign library.

:- begin_tests('bson_bits:bytes_to_integer/5').

test('zero', [true(Got == Expected)]) :-
    Expected = 0,
    bson_bits:bytes_to_integer(0,0,0,0, Got).

test('int32 min', [true(Got == Expected)]) :-
    Expected = -2147483648,
    bson_bits:bytes_to_integer(0,0,0,0x80, Got).

test('int32 max', [true(Got == Expected)]) :-
    Expected = 2147483647,
    bson_bits:bytes_to_integer(0xFF,0xFF,0xFF,0x7F, Got).

:- end_tests('bson_bits:bytes_to_integer/5').

%%  bytes_to_integer(
%       +B0:byte, +B1:byte, +B2:byte, +B3:byte,
%       +B4:byte, +B5:byte, +B6:byte, +B7:byte,
%       ?Integer:int) is det.
%
%   True if Integer is the integer represented by the consecutive
%   bytes (0..255) B0..B7 interpreted as a 64-bit little-endian integer.
%
%   Implemented in foreign library.

:- begin_tests('bson_bits:bytes_to_integer/9').

test('zero', [true(Got == Expected)]) :-
    Expected = 0,
    bson_bits:bytes_to_integer(0,0,0,0, 0,0,0,0, Got).

test('int64 min', [true(Got == Expected)]) :-
    Expected = -9223372036854775808,
    bson_bits:bytes_to_integer(0,0,0,0, 0,0,0,0x80, Got).

test('int64 max', [true(Got == Expected)]) :-
    Expected = 9223372036854775807,
    bson_bits:bytes_to_integer(0xFF,0xFF,0xFF,0xFF, 0xFF,0xFF,0xFF,0x7F, Got).

:- end_tests('bson_bits:bytes_to_integer/9').

error: pathspec 'src/bson/bson_bits.plt' did not match any file(s) known to git


fatal: unable to access 'https://github.com/ControlSystemStudio/cs-studio.git/': The requested URL returned error: 403


Used stacked barchart.

Used stacked barchart.

fatal: unable to access 'https://github.com/zorotools/sassy.git/': The requested URL returned error: 403


animation gif

animation gif

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/maxiiss/SHEEPS.git/'


set max 60 minutes in graph

set max 60 minutes in graph

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/viewthespace/solano-branch-stats.git/'


gnuplot performance graph template

gnuplot performance graph template


added gnuplot script to plot stuff based on members.csv

set xdata time
set timefmt "%Y-%m-%d"
set terminal png
set output "membersdelta.png"
plot "membersdelta.dat" using 1:2 with boxes
set output "memberscummulative.png"
plot "memberscummulative.dat" using 1:2 with boxes

error: pathspec 'gnuplot/shackspace/members.plot' did not match any file(s) known to git


GNUplot file for result.

GNUplot file for result.

fatal: unable to access 'https://github.com/clasp-developers/SICL.git/': The requested URL returned error: 403


File required for bug test 2249_2248

File required for bug test 2249_2248

git-svn-id: ed25c26de1c5325e8eb0deed0b990ab8af8a4def@4089 7c6358e6-4a41-0410-a743-a5b2a554c398

LOCUS       AAX56332                 120 aa            linear   PRI 01-JUN-2005
DEFINITION  anti-CTLA-4 monoclonal antibody immunoglobulin heavy chain [Homo
            sapiens].
ACCESSION   AAX56332
VERSION     AAX56332.1  GI:61815557
DBSOURCE    accession AY847516.1
KEYWORDS    .
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (residues 1 to 120)
  AUTHORS   Chin,L.-T., Chu,C., Hsu,S.-C., Chen,H.-M., Liu,H.-H. and Chu,C.-H.
  TITLE     Characterization of complete human anti-CTLA-4 IgG4f monoclonal
            antibody derived from site-directed in vitro immunization of
            peripheral lymphocytes
  JOURNAL   Unpublished
REFERENCE   2  (residues 1 to 120)
  AUTHORS   Chin,L.-T., Chu,C., Hsu,S.-C., Chen,H.-M., Liu,H.-H. and Chu,C.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-DEC-2004) Applied Microbiology, National Chiayi
            University, 300 Academy Road, Chiayi, Taiwan 600, Republic of China
FEATURES             Location/Qualifiers
     source          1..120
                     /organism="Homo sapiens"
                     /db_xref="taxon:9606"
     Protein         <1..>120
                     /product="anti-CTLA-4 monoclonal antibody immunoglobulin
                     heavy chain"
                     /name="IgG4f"
     Region          10..120
                     /region_name="IGv"
                     /note="Immunoglobulin domain variable region (v)
                     subfamily; members of the IGv subfamily are components of
                     immunoglobulins and T-cell receptors; cd00099"
                     /db_xref="CDD:28982"
     CDS             1..120
                     /coded_by="AY847516.1:<1..>362"
ORIGIN
        1 qvnlresggg vvqpgrslrl scaasgftfs sygmhwvrqa pgkglewvai iyydgrkiyy
       61 adsvkgrfti srdnsentvs lqmnslraed tavyycarah gdygrdgmdv wgqgttvtvs
//

error: pathspec 'tests/files/AAX56332.gp' did not match any file(s) known to git


added iteration test file

added iteration test file

set terminal pdf
set output '~/test.pdf'

set for [i = 1:10] style line i lc rgb "blue" # Broken, should still be line.set
set for [1:10] # Works file as line.set

plot [0:pi] for [n=1:2] sin(x*n)/n with filledcurves
plot for [ filename in ]
plot [0:e] for [n=1:2] sin(x*n)/n with filledcurves

plot for [filename in "A.dat B.dat C.dat"] filename using 1:2 with lines
plot for [filename in 'A.dat B.dat C.dat'] filename using 1:2 with lines
plot for [basename in "A B C"] basename.".dat" using 1:2 with lines
unset for [tag = 100:200] label tag

error: pathspec 'Test/iterator_syntax.gp' did not match any file(s) known to git


kvs-sim: gnuplot template

kvs-sim: gnuplot template

Signed-off-by: Noah Watkins <86ecd7d1c53cf33a85014f7cab78876cb4491020@gmail.com>

set key autotitle columnhead
set datafile separator ","
set xlabel 'snapshot'
set ylabel 'resolve count'
set y2label 'bytes read'
set ytics nomirror
set y2tics
set autoscale y
set autoscale y2
plot 'sim.dat' using 1:2 axes x1y1, '' using 1:3 axes x1y2

error: pathspec 'src/tools/kvs-plot-sim.gp' did not match any file(s) known to git


adding previously failing input.

adding previously failing input.

error: pathspec 'testdata/cliplibfail.gp' did not match any file(s) known to git


<?xml version="1.0" encoding="UTF-8" standalone="yes"?>
<databrowser>
    <title>
        <text>Beauty Plot</text>
        <color>
            <red>0</red>
            <green>0</green>
            <blue>255</blue>
        </color>
        1|Sans|12.0|1|GTK|1|
    </title>
    <graph_settings>
        <show_title>true</show_title>
        <show_legend>true</show_legend>
        <show_plot_area_border>false</show_plot_area_border>
        <transparent>false</transparent>
    </graph_settings>
    <scroll>true</scroll>
    <update_period>3.0</update_period>
    <start>-1 hours 0.0 seconds</start>
    <end>now</end>
    <time_axis>
        <axis>
            <name>Time</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>0</red>
                <green>0</green>
                <blue>0</blue>
            </color>
            <min>1.36628927793E12</min>
            <max>1.36629287793E12</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>true</time_format>
                <format_pattern>HH:mm</format_pattern>
            </format>
        </axis>
    </time_axis>
    <background>
        <red>255</red>
        <green>255</green>
        <blue>255</blue>
    </background>
    <archive_rescale>NONE</archive_rescale>
    <axes>
        <axis>
            <name>TEST-BTY0:AIn</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>21</red>
                <green>21</green>
                <blue>196</blue>
            </color>
            <min>0.0</min>
            <max>108.49089341573206</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
        <axis>
            <name>TEST-BTY0:RAMP1</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>139</red>
                <green>105</green>
                <blue>20</blue>
            </color>
            <min>-1.0000321507591365</min>
            <max>100.0</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
        <axis>
            <name>TEST-BTY0:RAMP2</name>
            1|Sans|10.0|1|GTK|1|
            <scale_font>1|Sans|10.0|0|GTK|1|</scale_font>
            <color>
                <red>160</red>
                <green>32</green>
                <blue>240</blue>
            </color>
            <min>-1.0000321507591365</min>
            <max>100.0</max>
            <log_scale>false</log_scale>
            <autoscale>true</autoscale>
            <visible>true</visible>
            <grid_line>
                <show_grid_line>false</show_grid_line>
                <dash_grid_line>true</dash_grid_line>
                <color>
                    <red>200</red>
                    <green>200</green>
                    <blue>200</blue>
                </color>
            </grid_line>
            <format>
                <auto_format>true</auto_format>
                <time_format>false</time_format>
                <format_pattern>############.##</format_pattern>
            </format>
        </axis>
    </axes>
    <annotations>
    </annotations>
    <pvlist>
        <pv>
            <name>TEST-BTY0:AI1</name>
            <display_name>TEST-BTY0:AI1</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>21</red>
                <green>21</green>
                <blue>196</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:AI2</name>
            <display_name>TEST-BTY0:AI2</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>242</red>
                <green>26</green>
                <blue>26</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:AI3</name>
            <display_name>TEST-BTY0:AI3</display_name>
            <visible>true</visible>
            <axis>0</axis>
            <linewidth>2</linewidth>
            <color>
                <red>66</red>
                <green>177</green>
                <blue>66</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:RAMP1</name>
            <display_name>TEST-BTY0:RAMP1</display_name>
            <visible>true</visible>
            <axis>1</axis>
            <linewidth>2</linewidth>
            <color>
                <red>139</red>
                <green>105</green>
                <blue>20</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
        <pv>
            <name>TEST-BTY0:RAMP2</name>
            <display_name>TEST-BTY0:RAMP2</display_name>
            <visible>true</visible>
            <axis>2</axis>
            <linewidth>2</linewidth>
            <color>
                <red>128</red>
                <green>0</green>
                <blue>255</blue>
            </color>
            <trace_type>AREA</trace_type>
            <waveform_index>0</waveform_index>
            <period>0.0</period>
            <ring_size>5000</ring_size>
            <request>OPTIMIZED</request>
            <archive>
                <name>rdb</name>
                <url>jdbc:postgresql://localhost/css_archive_3_0_0</url>
                <key>1</key>
            </archive>
        </pv>
    </pvlist>
</databrowser>

error: pathspec 'products/ITER/products/org.csstudio.iter.archive.engine.product/demo/m-TEST-BEAUTY/src/main/databrowser/bty0.plt' did not match any file(s) known to git


added gnuplot file

added gnuplot file

set zeroaxis
set term png size 400,400
set xlabel 'Lines of Data Processed (thousands)'
set ylabel 'Time (seconds per thousand data lines)'
set title 'Data Processing Cost'
set output 'graph.png'
plot 'in.csv' using 0:1 pt 5 ps 0.1 notitle

error: pathspec 'graph.plot' did not match any file(s) known to git


Improve support on ext lib

Improve support on ext lib

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/nkming2/MagicalGirlMica.git/'


put inside each gnuplot file

put inside each gnuplot file

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/ajholanda/numsde.git/'


Added gnuplot script to plot the benchark timings.

#!/usr/bin/gnuplot

set terminal postscript color
set output 'timing.ps'

set xlabel 'core count'
set ylabel 'relative speedup / ideal'

t_1 = 61.366154

plot 'timing.dat' using 1:(t_1/$2/$1) with linespoints title 'freeon-10'

error: pathspec 'spammpack-C/spammpack/charm/timing.gnuplot' did not match any file(s) known to git


When making torsion 12 curves, don't consider torsion point of
v^2 = u^3-12u as it doesn't change the ECM curve we get

git-svn-id: 189946a10c5fc96e9dd03ba7cba917cd4c3d09f4@2062 de4796e2-0b1e-0410-91b4-86bc23549317

fatal: unable to access 'https://github.com/mancoast/cado-nfs.git/': The requested URL returned error: 403


plot shooting trajectory

plot shooting trajectory

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/bszcz/c.git/'


create a detrend script

create a detrend script

set datafile separator ','
set key top left
set terminal pngcairo size 750,560

brightness_color = "forest-green"
trend_color = "red"
difference_color = brightness_color

set output "../assets/trend.png"
plot [2905:2985] "../assets/detrend.csv" using 1:2 title "brightness" linecolor brightness_color,"../assets/detrend.csv" using 1:3 title "trend" linecolor trend_color

set output "../assets/detrend.png"
plot [2905:2985] "../assets/detrend.csv" using 1:4 title "lightcurve" linecolor difference_color

error: pathspec 'rust-showcase/plots/detrend.gp' did not match any file(s) known to git


Added gnuplot folder and example script

Added gnuplot folder and example script

Signed-off-by: hhanff <614005e14bf436e325a3657627ee78b12f5f169d@googlemail.com>

#!/usr/bin/env gnuplot
reset
set term svg  size 1280,768
set output outputfile
set datafile separator " "

set xdata time
set timefmt "%H:%M:%S"
set format x "%H:%M:%S"
set xtics rotate
set xrange [:]

#set key autotitle columnheader

set xlabel 'Time [h:m:s]'
set xlabel offset 0,-10

set ytics 0.5
#set ytics 28.5,0.5
#set xtics 0.5

set ylabel offset -10,0

set macro
N=`awk 'NR==1{print NF}' @inputfile`

set ylabel "Temperature [$^\\\circ$C]"

#set key right bottom title ''
plot for [i=2:N] inputfile every 50 using 1:i with lines notitle

error: pathspec 'gnuplot/plot_canId-6-svg.plt' did not match any file(s) known to git


added size gnuplot script

added size gnuplot script

#!/usr/bin/gnuplot
# size gnuplot script creates x-y plots that evaluate the impact of
# dataset size to the similarity between datasets

if(!exists("inputFile") || !exists("outputFile")) {
	print("The following params must be defined: inputFile, outputFile");
	exit(0);
}

if(!exists("titleComment")) {
	titleComment=""
} else {
	titleComment=" (".titleComment.")"
}

set title "Similarity vs dataset size".titleComment
set terminal postscript eps size 7,5.0 enhanced color font 'Arial,34'
set output outputFile
set xlabel "Dataset size"
set ylabel "Similarity"
set logscale x
set xrange[1000:]
set yrange [0:1]
set grid
set key bottom right

#set logscale x

set style line 1 lt 1 pt 7 lc rgb "#000000" lw 4 ps 4
set style line 2 lt 1 pt 2 lc rgb "#333333" lw 4 ps 4
set style line 3 lt 1 pt 4 lc rgb "#777777" lw 4 ps 4
set style line 4 lt 1 pt 10 lc rgb "#999999" lw 4 ps 4

#plot for [f in inputFile] f u 2:4 w lp t system("basename ".f) ls 1
#plot for [i=1:words(inputFile)] word(inputFile,i) u 2:3 w lp t system("basename ".word(inputFile,i)) ls i
plot inputFile u 1:2 w lp t col ls 1, inputFile u 1:3 w lp t col ls 2
system("epstopdf ".outputFile." && rm ".outputFile)

error: pathspec '_plots/size.gnu' did not match any file(s) known to git


create noise plotter.

create noise plotter.

fatal: unable to access 'https://github.com/nushio3/UFCORIN.git/': The requested URL returned error: 403


tests: add gnuplot script for perftests

tests: add gnuplot script for perftests

if (!exists("unrelfile")) unrelfile='out1.txt'
if (!exists("relfile")) relfile='out2.txt'

set title "Throughput tests"
set xlabel "Packet size (bytes)"
set ylabel "Throughput (Gbps)"
set grid xtics lw 1 lt 0
set grid ytics lw 1 lt 0
set xtics 0,100,1500
set ytics 0,1,13
set key left top
plot unrelfile using 1:($5/1000) title 'Unreliable sender' with linespoints, unrelfile using 1:($9/1000) title 'Unreliable receiver' with linespoints, relfile using 1:($5/1000) title 'Reliable sender/receiver' with linespoints,
pause -1

error: pathspec 'tests/perftests.gnuplot' did not match any file(s) known to git


git-svn-id: https://daisy-model.googlecode.com/svn/trunk@3115 5f5bf4bb-3343-0410-8278-4fa8eb3319dc

error: pathspec 'txt/ominit/daisy.gnuplot' did not match any file(s) known to git


GNU compiler makefile.

GNU compiler makefile.

CC=gcc
FC=gfortran

COPT=-O3
FOPT=-O3 -fopenmp

openmp_pi: openmp_pi.o pi_mytime.o
	$(FC) -o openmp_pi $(FOPT) openmp_pi.o pi_mytime.o

openmp_pi.o: openmp_pi.f90
	$(FC) $(FOPT) -c openmp_pi.f90

pi_mytime.o: pi_mytime.c
	$(CC) $(COPT) -c pi_mytime.c

clean:
	rm -f *.o openmp_pi

error: pathspec 'c+f90_mix_openmp_dir/Makefile.gnu' did not match any file(s) known to git


ITER Demo folder:
Add plt file to TEST-BEAUTY project


Erster Gnuplot test

Erster Gnuplot test

set term postscript eps color blacktext "Helvetica" 24
set output 'test.eps'
set label 1 "This is the surface boundary" at -10, -5, 150 centre norotate back nopoint offset character 0, 0, 0
set arrow 1 from -10, -5, 120 to -10, 0, 0 nohead back nofilled linetype -1 linewidth 1.000
set arrow 2 from -10, -5, 120 to 10, 0, 0 nohead back nofilled linetype -1 linewidth 1.000
set arrow 3 from -10, -5, 120 to 0, 10, 0 nohead back nofilled linetype -1 linewidth 1.000
set arrow 4 from -10, -5, 120 to 0, -10, 0 nohead back nofilled linetype -1 linewidth 1.000
set samples 21, 21
set isosamples 11, 11
set title "3D gnuplot demo"
set xlabel "X axis"
set xlabel  offset character -3, -2, 0 font "" textcolor lt -1 norotate
set xrange [ -10.0000 : 10.0000 ] noreverse nowriteback
set ylabel "Y axis"
set ylabel  offset character 3, -2, 0 font "" textcolor lt -1 rotate by -270
set yrange [ -10.0000 : 10.0000 ] noreverse nowriteback
set zlabel "Z axis"
set zlabel  offset character -5, 0, 0 font "" textcolor lt -1 norotate
splot x*y

error: pathspec 'tools/test.gnu' did not match any file(s) known to git


adds plotting script

adds plotting script

set term postscript eps color
set output 'graph.eps'
set key bmargin left horizontal Right noreverse enhanced autotitles box linetype -1 linewidth 1.000
set samples 800, 800
plot [-19:19] '1.dat'with impulses ,'2.dat' ,'3.dat' with lines

error: pathspec 'make/plot_data.gnu' did not match any file(s) known to git


Plot - Evaluation results.

Plot - Evaluation results.

fatal: unable to access 'https://github.com/snovd/test-scripts.git/': The requested URL returned error: 403


Add gnuplot script

Add gnuplot script

# Gnuplot plot-generating script for ECE-L302 Lab 8
# Note that this script requires the LUA Gnuplot terminal, which is not
# distributed in all packages, and the gnuplot-lua-tikz LaTeX package to
# process it.  This can be found here:
#
# http://www.sfr-fresh.com/unix/misc/gnuplot-4.4.2.tar.gz:t/gnuplot-4.4.2/share/LaTeX/gnuplot-lua-tikz.sty
#
# Execute this script with $gnuplot plots.gp
#
# Author: Sean Barag <sjb89@drexel.edu>

set terminal tikz color solid size 4.25in,2.25in

# ---- Simulated ----
set border 15
unset key
set log x
set xrange[50:10e3]
set xtics (100, 300, 1000, 3000, 10000)
set yrange[-60:0]
set ytics 10
set title 'Simulated Frequency Response of Third-order Low Pass Filter'
set xlabel 'Input Frequency, $f$ (\si{\hertz})'
set ylabel 'Output Gain, $A$, (\si{\decibel})'
set grid
set output "../img/plot/bodePlotSim.tex"
plot "bodeData.txt" using 1:2 with lines lw 3

# ---- Measured ----
set title 'Measured Frequency Response of Third-order Low Pass Filter'
set output "../img/plot/bodePlotMeas.tex"
plot "labViewData.txt" using 1:5 with lines lw 3

# ---- Calculated ----
set title 'Calculated Frequency Response of Third-order Low Pass Filter'
set output "../img/plot/bodePlotCalc.tex"
plot "matlabBodeData.txt" using 1:3 with lines lw 3

# ---- Composite ----
set key bottom left box
set title 'Composite Frequency Response of Third-order Low Pass Filter'
set output "../img/plot/bodePlotComposite.tex"
plot "bodeData.txt" using 1:2 with lines lw 2 title 'Simulated', \
	"labViewData.txt" using 1:5 with lines lw 2 title 'Measured', \
	"matlabBodeData.txt" using 1:3 with lines lw 2 title 'Calculated'

error: pathspec 'src/data/plots.gp' did not match any file(s) known to git


Scaled by 1000.

Scaled by 1000.

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/zorotools/sassy.git/'


restore initial configuration

restore initial configuration


Comparsion PoS sequences and Regular Expressions

reset # do not use any previous settings
set title "Candidate keyphrases extracted with PoS sequences (development corpus)" # title
set xlabel "Minimum number of ocurrences of each PoS sequence" # x-axis label
set ylabel "Precision/Recall/F1" # y-axis label
set term png size 1000, 600 font "Helvetica" 12
set size ratio 0.55 #plot dimensions
set output "posseq.png" # name of image file
set grid y
set xtics rotate
set format y "%1.2f";
set ytics 0.1
set yrange [0.0:1.0] writeback
set key right top
set style data linespoints # set default way of data plotting
set pointsize 1.3 # increase size of points on the line
set style line 1 lc rgb '#0060ad' pt 5   # square
set style line 2 lc rgb '#dd181f' pt 7   # circle
set style line 3 lc rgb '#2E8B57' pt 9   # triangle
set style line 4 lw 1.5 lc rgb '#6495ED' pt 1
set style line 5 lw 1.5 lc rgb '#FF1493' pt 1

plot "dev_seq_projection_filter_by_count.dat" using 1:3:xtic(2) title "Precision" with linespoints ls 1, \
"dev_seq_projection_filter_by_count.dat" using 1:4:xtic(2) title "Recall" with linespoints ls 2, \
"dev_seq_projection_filter_by_count.dat" using 1:5:xtic(2) title "F1" with linespoints ls 3, \

reset # do not use any previous settings
set title "Candidate keyphrases extracted with RegExp (development corpus)" # title
set xlabel "Minimum number of ocurrences of each PoS sequence" # x-axis label
set ylabel "Precision/Recall/F1" # y-axis label
set term png size 1000, 600 font "Helvetica" 12
set size ratio 0.55 #plot dimensions
set output "regexp.png" # name of image file
set grid y
set xtics rotate
set format y "%1.2f";
set ytics 0.1
set yrange [0.0:1.0] writeback
set key right top
set style data linespoints # set default way of data plotting
set pointsize 1.3 # increase size of points on the line
set style line 1 lc rgb '#0060ad' pt 5   # square
set style line 2 lc rgb '#dd181f' pt 7   # circle
set style line 3 lc rgb '#2E8B57' pt 9   # triangle
set style line 4 lw 1.5 lc rgb '#6495ED' pt 1
set style line 5 lw 1.5 lc rgb '#FF1493' pt 1

plot "dev_seq_regex_projection_filter_by_count.dat" using 1:3:xtic(2) title "Precision" with linespoints ls 1, \
"dev_seq_regex_projection_filter_by_count.dat" using 1:4:xtic(2) title "Recall" with linespoints ls 2, \
"dev_seq_regex_projection_filter_by_count.dat" using 1:5:xtic(2) title "F1" with linespoints ls 3, \

error: pathspec 'kpext/results/posseq_common_and_regexp.gnu' did not match any file(s) known to git


format for easier reading

format for easier reading

# 15/50us EIAJ de-emphasis filter for CD/DAT
#
# 09/02/98 (c) Heiko Eissfeldt
#
# 18/03/07 robs@users.sourceforge.net: changed to biquad for slightly
# better accuracy.
#
# License: LGPL (Lesser Gnu Public License)
#
# This implements the inverse filter of the optional pre-emphasis stage
# as defined by ISO 908 (describing the audio cd format).
#
# Background: In the early days of audio cds, there were recording
# problems with noise (for example in classical recordings). The high
# dynamics of audio cds exposed these recording errors a lot.
#
# The commonly used solution at that time was to 'pre-emphasize' the
# trebles to have a better signal-noise-ratio. That is trebles were
# amplified before recording, so that they would give a stronger signal
# compared to the underlying (tape) noise.
#
# For that purpose the audio signal was prefiltered with the following
# frequency response (simple first order filter):
#
# V (in dB)
# ^
# |
# |~10dB                    _________________
# |                        /
# |                       / |
# |      20dB / decade ->/  |
# |                     /   |
# |____________________/_ _ |_ _ _ _ _ _ _ _ _ Frequency
# |0 dB                |    |
# |                    |    |
# |                    |    |
#                 3.1kHz    ~10kHz
#
# So the recorded audio signal has amplified trebles compared to the
# original.  HiFi cd players do correct this by applying an inverse
# filter automatically, the cd-rom drives or cd burners used by digital
# sampling programs (like cdda2wav) however do not.
#
# So, this is what this effect does.
#
# This is the gnuplot file for the frequency response of the deemphasis.
#
# The absolute error is <=0.04dB up to ~12kHz, and <=0.06dB up to 20kHz.

# First define the ideal filter:

# Filter parameters
T = 1. / 441000.          # we use the tenfold sampling frequency
OmegaU = 1. / 15e-6
OmegaL = 15. / 50. * OmegaU

# Calculate filter coefficients
V0 = OmegaL / OmegaU
H0 = V0 - 1.
B = V0 * tan(OmegaU * T / 2.)
A1 = (B - 1.) / (B + 1.)
B0 = (1. + (1. - A1) * H0 / 2.)
B1 = (A1 + (A1 - 1.) * H0 / 2.)

# helper variables
D = B1 / B0
O = 2 * pi * T

# Ideal transfer function
Hi(f) = B0*sqrt((1 + 2*cos(f*O)*D + D*D)/(1 + 2*cos(f*O)*A1 + A1*A1))

# Now use a biquad (RBJ high shelf) with sampling frequency of 44100Hz
# to approximate the ideal curve:

# Filter parameters
t = 1. / 44100.
gain = -9.477
slope = .4845
f0 = 5283

# Calculate filter coefficients
A = exp(gain / 40. * log(10.))
w0 = 2. * pi * f0 * t
alpha = sin(w0) / 2. * sqrt((A + 1. / A) * (1. / slope - 1.) + 2.)
b0 = A * ((A + 1.) + (A - 1.) * cos(w0) + 2. * sqrt(A) * alpha)
b1 = -2. * A * ((A - 1.) + (A + 1.) * cos(w0))
b2 = A * ((A + 1.) + (A - 1.) * cos(w0) - 2. * sqrt(A) * alpha)
a0 = (A + 1.) - (A - 1.) * cos(w0) + 2. * sqrt(A) * alpha
a1 = 2. * ((A - 1.) - (A + 1.) * cos(w0))
a2 = (A + 1.) - (A - 1.) * cos(w0) - 2. * sqrt(A) * alpha
b2 = b2 / a0
b1 = b1 / a0
b0 = b0 / a0
a2 = a2 / a0
a1 = a1 / a0

# helper variables
o = 2 * pi * t

# Best fit transfer function
Hb(f) = sqrt((b0*b0 + b1*b1 + b2*b2 +\
    2.*(b0*b1 + b1*b2)*cos(f*o) + 2.*(b0*b2)* cos(2.*f*o)) /\
  (1. + a1*a1 + a2*a2 + 2.*(a1 + a1*a2)*cos(f*o) + 2.*a2*cos(2.*f*o)))

# plot real, best, ideal, level with halved attenuation,
#   level at full attentuation, 10fold magnified error
set logscale x
set grid xtics ytics mxtics mytics
set key left bottom
plot [f=1000:20000] [-12:2] \
20 * log10(Hi(f)),\
20 * log10(Hb(f)),\
20 * log10(OmegaL/(2 * pi * f)),\
.5 * 20 * log10(V0),\
20 * log10(V0),\
200 * log10(Hb(f)/Hi(f))

pause -1 "Hit return to continue"

# 15/50us EIAJ de-emphasis filter for CD/DAT
#
# 09/02/98 (c) Heiko Eissfeldt
#
# 18/03/07 robs@users.sourceforge.net: changed to biquad for slightly
# better accuracy.
#
# License: LGPL (Lesser Gnu Public License)
#
# This implements the inverse filter of the optional pre-emphasis stage
# as defined by ISO 908 (describing the audio cd format).
#
# Background: In the early days of audio cds, there were recording
# problems with noise (for example in classical recordings). The high
# dynamics of audio cds exposed these recording errors a lot.
#
# The commonly used solution at that time was to 'pre-emphasize' the
# trebles to have a better signal-noise-ratio. That is trebles were
# amplified before recording, so that they would give a stronger signal
# compared to the underlying (tape) noise.
#
# For that purpose the audio signal was prefiltered with the following
# frequency response (simple first order filter):
#
# V (in dB)
# ^
# |
# |~10dB                    _________________
# |                        /
# |                       / |
# |      20dB / decade ->/  |
# |                     /   |
# |____________________/_ _ |_ _ _ _ _ _ _ _ _ Frequency
# |0 dB                |    |
# |                    |    |
# |                    |    |
#                 3.1kHz    ~10kHz
#
# So the recorded audio signal has amplified trebles compared to the
# original.  HiFi cd players do correct this by applying an inverse
# filter automatically, the cd-rom drives or cd burners used by digital
# sampling programs (like cdda2wav) however do not.
#
# So, this is what this effect does.
#
# This is the gnuplot file for the frequency response of the deemphasis.
#
# The absolute error is <=0.04dB up to ~12kHz, and <=0.06dB up to 20kHz.

# First define the ideal filter:

# Filter parameters
T=1./441000.          # we use the tenfold sampling frequency
OmegaU=1./15e-6
OmegaL=15./50.*OmegaU

# Calculate filter coefficients
V0=OmegaL/OmegaU
H0=V0 - 1.
B=V0*tan(OmegaU*T/2.)
a1=(B - 1.)/(B + 1.)
b0=(1.0 + (1.0 - a1) * H0/2.)
b1=(a1 + (a1 - 1.0) * H0/2.)

# helper variables
D=b1/b0
o=2*pi*T

# Ideal transfer function
Hi(f)=b0*sqrt((1 + 2*cos(f*o)*D + D*D)/(1 + 2*cos(f*o)*a1 + a1*a1))

# Now use a biquad (RBJ high shelf) with sampling frequency of 44100 Hz
# to approximate the ideal curve:

# Filter parameters
m_t=1./44100.
m_gain=-9.477
m_slope=.4845
m_f0=5283

# Calculate filter coefficients
m_A=exp(m_gain/40.*log(10.))
m_w0=2.*pi*m_f0*m_t
m_alpha=sin(m_w0)/2.*sqrt((m_A+1./m_A)*(1./m_slope-1.)+2.)
m_b0=m_A*((m_A+1.)+(m_A-1.)*cos(m_w0)+2.*sqrt(m_A)*m_alpha)
m_b1=-2.*m_A*((m_A-1.)+(m_A+1.)*cos(m_w0))
m_b2=m_A*((m_A+1.)+(m_A-1.)*cos(m_w0)-2.*sqrt(m_A)*m_alpha)
m_a0=(m_A+1.)-(m_A-1.)*cos(m_w0)+2.*sqrt(m_A)*m_alpha
m_a1=2.*((m_A-1.)-(m_A+1.)*cos(m_w0))
m_a2=(m_A+1.)-(m_A-1.)*cos(m_w0)-2.*sqrt(m_A)*m_alpha
m_b2=m_b2/m_a0
m_b1=m_b1/m_a0
m_b0=m_b0/m_a0
m_a2=m_a2/m_a0
m_a1=m_a1/m_a0

# helper variables
m_o=2*pi*m_t

# Best fit transfer function
Hb(f)=sqrt(\
  (m_b0*m_b0 + m_b1*m_b1 + m_b2*m_b2 +\
    2.*(m_b0*m_b1 + m_b1*m_b2)*cos(f*m_o) +\
    2.*(m_b0*m_b2)* cos(2.*f*m_o)) /\
  (1. + m_a1*m_a1 + m_a2*m_a2 +\
    2.*(m_a1 + m_a1*m_a2)*cos(f*m_o) +\
    2.*m_a2*cos(2.*f*m_o)))

# plot real, best, ideal, level with halved attenuation,
#   level at full attentuation, 10fold magnified error
set logscale x
set grid xtics ytics mxtics mytics
set key left bottom
plot [f=1000:20000] [-12:2] \
20*log10(Hi(f)),\
20*log10(Hb(f)),\
20*log10(OmegaL/(2* pi*f)),\
0.5*20*log10(V0),\
20*log10(V0),\
200*log10(Hb(f)/Hi(f))

pause -1 "Hit return to continue"


Libsmm config file.

Libsmm config file.

target_compile="gfortran -O2 -funroll-loops -ffree-form -ffree-line-length-none -ftree-vectorize -march=native -cpp -finline-functions -fopenmp"

blas_linking="-L/shared/ucl/apps/openblas/0.2.14/gnu-4.9.2/lib -lopenblas"

host_compile="gfortran -O2"

error: pathspec 'cp2k-4.1-patches/linux.gnu' did not match any file(s) known to git


Added some scripts for gnuplotting

Added some scripts for gnuplotting

git-svn-id: b233c5b81dcfbfdfca783093b3213ccfd2356b3a@545 3eb578c0-666c-0410-8428-3510748880ad

set terminal png
set yr[0:]
set output planar-axiall6b6.d0g1.d-3DF.png
plot "planar-axiall6b6.d0DF.txt" using 2:5 every ::33::43, "analytical_data/BBR_axial_mix.txt" using 1:3 every ::33::43

set output planar-axiall6b6.d0g1.d-2DF.png
plot "planar-axiall6b6.d0.txt" using 2:5 every ::66::76, "analytical_data/BBR_axial_mix.txt" using 1:3 every ::66::76

set output planar-axiall6b6.d0g1.d-1DF.png
plot "planar-axiall6b6.d0.txt" using 2:5 every ::99::108, "analytical_data/BBR_axial_mix.txt" using 1:3 every ::99::108

set output planar-biaxiall6b6.d0g1.d-3DF.png
plot "planar-biaxiall6b6.d0DF.txt" using 2:5 every ::33::43, "analytical_data/BBR_biaxial_mix.txt" using 1:3 every ::33::43

set output planar-biaxiall6b6.d0g1.d-2DF.png
plot "planar-biaxiall6b6.d0.txt" using 2:5 every ::66::76, "analytical_data/BBR_biaxial_mix.txt" using 1:3 every ::66::76

set output planar-biaxiall6b6.d0g1.d-1DF.png
plot "planar-biaxiall6b6.d0.txt" using 2:5 every ::99::108, "analytical_data/BBR_biaxial_mix.txt" using 1:3 every ::99::108

error: pathspec 'gnuplot_scripts/plotscript.plt' did not match any file(s) known to git


Use new Pari syntax for elliptic curve point counting

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/mancoast/cado-nfs.git/'


add example script for gnuplot

add example script for gnuplot

# run with gnuplot -e filename=\'glx_hook_frametimes-ctx1.csv\' script.gnuplot

set yrange [0:50]
set ylabel 'time [milliseconds]'
set xlabel 'frame number'

set style line 1 lt 1 lw 1 lc rgb "#109010"
set style line 2 lt 1 lw 1 lc rgb "black"
set style line 3 lt 1 lw 3 lc rgb "red"
set style line 4 lt 1 lw 1 lc rgb "blue"

set terminal png size 1600,1000
outfile=sprintf("%s.png",filename)
set output outfile

plot \
	filename using 1:($2/1000000) w l ls 1 title 'draw (CPU)', \
	filename using 1:($3/1000000) w l ls 2 title 'draw (GPU)', \
	filename using 1:($6/1000000) w l ls 3 title 'whole frame (GPU)', \
	filename using 1:($7/1000000) w l ls 4 title 'latency'

error: pathspec 'script.gnuplot' did not match any file(s) known to git


result file

result file

git-svn-id: de9bbed4c30e0eb58fe8e7d66f5c80b71699a07c@2908 bf01a9d7-0df3-0310-8ad4-b1c94d9ae2d5

set term X11
!tail -n 100000 result.dat > result-gp.dat
#plot "result-gp.dat" u 1:8 t "Corner 1" w l
#plot "result-gp.dat" u 1:9 t "Corner 2" w l
#plot "result-gp.dat" u 1:10 t "Corner 3" w l
#plot "result-gp.dat" u 1:11 t "Corner 4" w l
plot "result-gp.dat" u 1:5 t "Crank speed" w l
#plot "result-gp.dat" u 1:6 t "Rod speed" w l
#plot "result-gp.dat" u 3:6 t "Phase diagram rod" w l
#plot "result-gp.dat" u 12:13 t "Phase diagram slider position" w l

error: pathspec 'Examples/Mechanics/SliderCrank/result.gp' did not match any file(s) known to git


Gnuplot script to plot decisions

Gnuplot script to plot decisions

set terminal postscript eps enhanced color
set output "dir/outfile.eps"
set size 1.4, 0.7 # Extra wide plot

set xlabel "Time Interval [s]"
set ylabel "Score" rotate by +90 center
unset key

set key autotitle columnhead # First lines are headers

set style data histograms
set style histogram rowstacked
set boxwidth 0.40 relative # Bar width
set style fill solid 1.00 noborder

set xtics nomirror
set ytics nomirror

plot 'dir/datafile.name' \
		   using 2:xticlabels(1) lc 4, \
		'' using 3:xticlabels(1) lc 5, \
		'' using ($4*-1.0):xticlabels(1) lc 7, \
		'' using 5:xticlabels(1) with points lc 8 lt 6

error: pathspec 'scripts/parsers/allDecPostCoeff.gnuplot' did not match any file(s) known to git


Added gnuplot dir and cavity.plt.

Added gnuplot dir and cavity.plt.

# Terminal type is: 0 - X11, 1 - PS, 2 - PNG, 3 - JPG
term_type = 0;

# On-axis long. E-field [V/m] vs. z [mm].
file1 = "axisData_41.txt";

# Transverse higher order E-field [V/m] ([V] for dipole) vs. z [mm].
# Dipole.
file2 = "Multipole41/CaviMlp_EDipole_41.txt";
#  First half of defocusing component.
file3 = "Multipole41/CaviMlp_EFocus1_41.txt";
#  Second half of defocusing component.
file4 = "Multipole41/CaviMlp_EFocus2_41.txt";
file5 = "Multipole41/CaviMlp_EQuad_41.txt";

file6 = "Multipole41/CaviMlp_HDipole_41.txt";
file7 = "Multipole41/CaviMlp_HMono_41.txt";
file8 = "Multipole41/CaviMlp_HQuad_41.txt";
file9 = "Multipole41/thinlenlon_41.txt";

if (term_type == 0) set terminal x11;
if (term_type == 1) set terminal postscript landscape enhanced color solid \
  lw 2 "Times-Roman" 15;
#if (term_type == 2) set terminal pngcairo size 350, 262 enhanced \
#  font 'Verdana,10';
if (term_type == 2) set terminal pngcairo enhanced font "Times-Roman";
if (term_type == 3) set terminal jpeg enhanced;

set grid;

set style line 1 lt 1 lw 1 lc rgb "blue";
set style line 2 lt 1 lw 1 lc rgb "cyan";
set style line 3 lt 1 lw 1 lc rgb "green";
set style line 4 lt 1 lw 1 lc rgb "red";
set style line 5 lt 1 lw 1 lc rgb "dark-green";
set style line 6 lt 1 lw 1 lc rgb "dark-orange";
set style line 7 lt 1 lw 1 lc rgb "dark-violet";
set style line 8 lt 1 lw 1 lc rgb "orange-red";

if (term_type == 1) set output "cavity_1.ps"
if (term_type == 2) set output "cavity_1.png"
if (term_type == 3) set output "cavity_1.jpg"

set title "Cavity Fundamental Mode: axisData";
set xlabel "z [cm]"; set ylabel "E_=? [MV/m]";
plot file1 using (1e-1*$1):(1e-6*$2) notitle with lines ls 1;

if (term_type == 0) pause mouse "click on graph to cont.\n";

if (term_type == 1) set output "cavity_2.ps"
if (term_type == 2) set output "cavity_2.png"
if (term_type == 3) set output "cavity_2.jpg"

set multiplot;

set size 0.5, 0.5; set origin 0.0, 0.5;
set title "Cavity Mode: EDipole";
set xlabel "r [cm]"; set ylabel "E_{perp}? [MV]";
plot file2 using (1e-1*$1):(1e-6*$2) notitle with lines ls 3;

set origin 0.5, 0.5;
set title "Cavity: EFocus1";
set xlabel "r [cm]"; set ylabel "E_{perp}? [MV/m]";
plot file3 using (1e-1*$1):(1e-6*$2) notitle with lines ls 3;

set origin 0.0, 0.0;
set title "Cavity: EFocus2";
set xlabel "r [cm]"; set ylabel "E_{perp}? [MV/m]";
plot file4 using (1e-1*$1):(1e-6*$2) notitle with lines ls 3;

set origin 0.5, 0.0;
set title "Cavity Mode: EQuad";
set xlabel "r [cm]"; set ylabel "E_{perp}? [MV/m]";
plot file5 using (1e-1*$1):(1e-6*$2) notitle with lines ls 3;

unset multiplot;
if (term_type == 0) pause mouse "click on graph to cont.\n";

if (term_type == 1) set output "cavity_3.ps"
if (term_type == 2) set output "cavity_3.png"
if (term_type == 3) set output "cavity_3.jpg"

set multiplot;

set size 0.5, 0.5; set origin 0.0, 0.5;
set title "Cavity Mode: HDipole";
set xlabel "r [cm]"; set ylabel "E_{perp}? [kV?]";
plot file6 using (1e-1*$1):(1e-3*$2) notitle with lines ls 3;

set origin 0.5, 0.5;
set title "Cavity Mode: HMono";
set xlabel "r [cm]"; set ylabel "E_{perp}? [kV?]";
plot file7 using (1e-1*$1):(1e-3*$2) notitle with lines ls 3;

set origin 0.0, 0.0;
set title "Cavity Mode: HQuad";
set xlabel "r [cm]"; set ylabel "E_{perp}? [kV?]";
plot file8 using (1e-1*$1):(1e-3*$2) notitle with lines ls 3;

unset multiplot;
if (term_type == 0) pause mouse "click on graph to cont.\n";

if (term_type == 1) set output "cavity_4.ps"
if (term_type == 2) set output "cavity_4.png"
if (term_type == 3) set output "cavity_4.jpg"

set multiplot;

set size 1.0, 0.5; set origin 0.0, 0.5;
set title "Cavity Thin Lens Model: Longitudinal Kick";
set xlabel "z [cm]"; set ylabel "{/Symbol q}_=? [mrad?]";
set xrange [-13:];
plot file9 using (1e-1*$1):($4) notitle with impulses ls 1;

set origin 0.0, 0.0;
set title "Transverse Kick";
set xlabel "z [cm]"; set ylabel "{/Symbol q}_=? [mrad?]";
set xrange [-13:];
plot file9 using (1e-1*$1):($6) axis x1y2 notitle with impulses ls 3;

unset multiplot;
if (term_type == 0) pause mouse "click on graph to cont.\n";

error: pathspec 'gnuplot/cavity.plt' did not match any file(s) known to git


A very simple starter script to graph the output using gnuplot.

#Pipe in the CSV you want to use, e.g. `cat out.csv | gnuplot graph.plt`
set datafile separator ","
plot 'out.csv' using 0:3

error: pathspec 'analysis/graph.plt' did not match any file(s) known to git


example gnuplot for 3d vis of 1d timeseries

fatal: unable to access 'https://github.com/renemilk/DUNE-Stuff.git/': The requested URL returned error: 403


Add makefile for Linux GCC

Add makefile for Linux GCC

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/nkming2/MagicalGirlMica.git/'


Add macros for relative error to lib/math/ancillary.

error: pathspec 'lib/math/ancillary/ulp.gp' did not match any file(s) known to git


Add a style configuration

Add a style configuration

set terminal pdfcairo enhanced color transparent rounded

set key outside center top horizontal reverse Left samplen 2
unset border
set xtics scale 0
set ytics scale 0
set grid ytics linewidth 1 linetype -1

set style line 1 lt 1 lc rgbcolor "#3465a4" lw 2.5 pt 7 ps 1
set style line 2 lt 1 lc rgbcolor "#edd400" lw 2.5 pt 7 ps 1
set style line 3 lt 1 lc rgbcolor "#888a85" lw 2.5 pt 5 ps 1
set style line 4 lt 1 lc rgbcolor "#f57900" lw 2.5 pt 5 ps 1
set style line 5 lt 1 lc rgbcolor "#ad7fa8" lw 2.5 pt 9 ps 1
set style line 6 lt 1 lc rgbcolor "#4e9a06" lw 2.5 pt 9 ps 1
set style line 7 lt 1 lc rgbcolor "#ef2929" lw 2.5 pt 1 ps 1
set style line 8 lt 1 lc rgbcolor "#5c3566" lw 2.5 pt 1 ps 1
set style line 9 lt 1 lc rgbcolor "#c17d11" lw 2.5 pt 3 ps 1
set style line 10 lt 1 lc rgbcolor "#dce775" lw 2.5 pt 3 ps 1

error: pathspec 'theme.gnuplot' did not match any file(s) known to git


insert head

insert head

remote: Support for password authentication was removed on August 13, 2021.
remote: Please see https://docs.github.com/en/get-started/getting-started-with-git/about-remote-repositories#cloning-with-https-urls for information on currently recommended modes of authentication.
fatal: Authentication failed for 'https://github.com/ajholanda/numsde.git/'


Stream Bench plotter

Stream Bench plotter

fatal: unable to access 'https://github.com/nushio3/formura.git/': The requested URL returned error: 403


Add print_orders() function

Add print_orders() function


Add gnuplot script

Add gnuplot script

# Gnuplot plot-generating script for ECE-L302 Lab 8
# Note that this script requires the LUA Gnuplot terminal, which is not
# distributed in all packages, and the gnuplot-lua-tikz LaTeX package to
# process it.  This can be found here:
#
# http://www.sfr-fresh.com/unix/misc/gnuplot-4.4.2.tar.gz:t/gnuplot-4.4.2/share/LaTeX/gnuplot-lua-tikz.sty
#
# Execute this script with $gnuplot plots.gp
#
# Author: Sean Barag <sjb89@drexel.edu>

set terminal tikz color solid size 4.25in,2.25in

# --- Voltage Sweep ----
set border 15
set key center right width 1 box height 1
set log x
set xrange[0.0001:5]
set yrange[0:150]
set y2range[0:55]
set y2tics auto
set title 'Free-running Oscillator: Varying Capacitor'
set xlabel 'Capacitance, $C_A$ (\si{\micro\farad})'
set ylabel 'Output Frequency, $f$ (\si{\kilo\hertz})'
set y2label 'Output Duty Cycle, (\si{\percent})'
set grid
set output "../img/plot/free_run.tex"
plot "free_run_c.txt" using 1:3 with linespoints axis x1y1 lw 3 pt 8 title '$f$', \
     "free_run_c.txt" using 1:4 with linespoints axis x1y2 lw 3 pt 5 title 'Duty Cycle'

error: pathspec 'src/data/plots.gp' did not match any file(s) known to git


Add script to make plots from the collected data

set terminal png font 'Arial, 24' size 1600,900 background rgb "#ffffff"

set style line 100 lt -1 lw 2 lc rgb '#000000'

set border 3 front ls 100

set datafile separator ','

set grid back lw 2 x y
set xrange [0:24]
set x2range [0:768]
set yrange [0:200]
set xtics nomirror 4
set x2tics nomirror 128
set ytics nomirror

####################################

set output 'cpus.png'

set key off autotitle columnheader
set title 'Gromacs on many CPUs'
set xlabel 'Cluster nodes'
set x2label 'Threads'
set ylabel 'Simulation speed (ns/day)'

plot \
	'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#00aeef' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines notitle lc rgb '#00aeef' lw 3

####################################

set output 'cpus_ethernet.png'

set key on inside right bottom autotitle columnheader box height 1.5
set title 'Influence of network'

plot \
	'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#00aeef' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines title 'Infiniband' lc rgb '#00aeef' lw 3 \
	, 'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'ethernet') ? $2 : 0/0):14 \
		with points notitle lc rgb '#ef6e00' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'ethernet') ? $2 : 0/0):14 \
		with lines title 'Ethernet' lc rgb '#ef6e00' lw 3

####################################

set output 'gpu_cmp.png'

set key off autotitle columnheader
set title 'Gromacs on many GPUs'
set autoscale x
unset x2tics

set boxwidth 0.5
set style fill solid

plot 'gpu_cmp_clean.csv' using 0:14:xtic(18) with boxes lc rgb '#00aeef' notitle

set xtics nomirror 128

####################################

set output 'cpus_gpu.png'

set key off autotitle columnheader
set title 'Gromacs on many CPUs, with 1 GPU per 32 threads'
set xrange [0:24]
set xtics nomirror 4
set x2tics nomirror 128

plot \
	'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#00aeef' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines notitle lc rgb '#00aeef' lw 3 \
	, 'data_clean.csv' using (($4 == 1 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#009f00' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 1 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines notitle lc rgb '#009f00' lw 3

####################################

set output 'practice.png'

set key on inside right bottom autotitle columnheader box height 1.5
set title 'Gromacs on Cartesius vs. Lisa (approximately)'

plot \
	'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#00aeef' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines title 'Cartesius CPU' lc rgb '#00aeef' lw 3 \
	, 'data_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'ethernet') ? $2 : 0/0):14 \
		with points notitle lc rgb '#ef6e00' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 0 && stringcolumn(6) eq 'ethernet') ? $2 : 0/0):14 \
		with lines title 'Lisa CPU' lc rgb '#ef6e00' lw 3 \
	, 'data_clean.csv' using (($4 == 0 && $5 == 2 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with points notitle lc rgb '#ae00ef' pt 7 ps 3 \
	, 'means_clean.csv' using (($4 == 0 && $5 == 2 && stringcolumn(6) eq 'infiniband') ? $2 : 0/0):14 \
		with lines title 'Cartesius GPU' lc rgb '#ae00ef' lw 3

error: pathspec 'make_plots.gnuplot' did not match any file(s) known to git


Add new .gnuplot file

Add new .gnuplot file

fatal: unable to access 'https://github.com/lasp-lang/lasp.git/': The requested URL returned error: 403


Add a template of gnuplot

Add a template of gnuplot

#!/usr/bin/env gnuplot

set encoding utf8
set terminal epslatex
set output '<+filebase+>.eps'
set output '<+FILEBASE+>.tex'

<+CURSOR+>

error: pathspec 'Gnuplot/epslatex.plt' did not match any file(s) known to git


Small fixes

Small fixes


Compute order for curve with torsion rational 16

git-svn-id: 189946a10c5fc96e9dd03ba7cba917cd4c3d09f4@2231 de4796e2-0b1e-0410-91b4-86bc23549317


Subexponential Chebyshev V(x)

Subexponential Chebyshev V(x)


Recovery of Bug2249_2248Test

Recovery of Bug2249_2248Test

git-svn-id: ed25c26de1c5325e8eb0deed0b990ab8af8a4def@4109 7c6358e6-4a41-0410-a743-a5b2a554c398

LOCUS       AAX56332                 120 aa            linear   PRI 01-JUN-2005
DEFINITION  anti-CTLA-4 monoclonal antibody immunoglobulin heavy chain [Homo
            sapiens].
ACCESSION   AAX56332
VERSION     AAX56332.1  GI:61815557
DBSOURCE    accession AY847516.1
KEYWORDS    .
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (residues 1 to 120)
  AUTHORS   Chin,L.-T., Chu,C., Hsu,S.-C., Chen,H.-M., Liu,H.-H. and Chu,C.-H.
  TITLE     Characterization of complete human anti-CTLA-4 IgG4f monoclonal
            antibody derived from site-directed in vitro immunization of
            peripheral lymphocytes
  JOURNAL   Unpublished
REFERENCE   2  (residues 1 to 120)
  AUTHORS   Chin,L.-T., Chu,C., Hsu,S.-C., Chen,H.-M., Liu,H.-H. and Chu,C.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-DEC-2004) Applied Microbiology, National Chiayi
            University, 300 Academy Road, Chiayi, Taiwan 600, Republic of China
FEATURES             Location/Qualifiers
     source          1..120
                     /organism="Homo sapiens"
                     /db_xref="taxon:9606"
     Protein         <1..>120
                     /product="anti-CTLA-4 monoclonal antibody immunoglobulin
                     heavy chain"
                     /name="IgG4f"
     Region          10..120
                     /region_name="IGv"
                     /note="Immunoglobulin domain variable region (v)
                     subfamily; members of the IGv subfamily are components of
                     immunoglobulins and T-cell receptors; cd00099"
                     /db_xref="CDD:28982"
     CDS             1..120
                     /coded_by="AY847516.1:<1..>362"
ORIGIN
        1 qvnlresggg vvqpgrslrl scaasgftfs sygmhwvrqa pgkglewvai iyydgrkiyy
       61 adsvkgrfti srdnsentvs lqmnslraed tavyycarah gdygrdgmdv wgqgttvtvs
//

error: pathspec 'tests/files/AAX56332.gp' did not match any file(s) known to git


Add to repository.

Add to repository.

set terminal png transparent nointerlace \
    font "lucon.ttf,20" \
    size 1920,1080 nocrop \
    noenhanced \
    background '#FFFFFF'

set output "background-default.png"
set encoding utf8

set style line 100 linetype 1 linewidth 1 linecolor rgbcolor '#aaaaaa'
set style line 101 linetype 1 linewidth 5 linecolor rgbcolor '#000000'
set style line 102 linetype 2 linewidth 4 linecolor rgbcolor '#999999'
set style line 103 linetype 3 linewidth 4 linecolor rgbcolor '#A00000'
set style line 104 linetype 4 linewidth 4 linecolor rgbcolor '#FF0000'
set style line 105 linetype 5 linewidth 4 linecolor rgbcolor '#007000'
set style line 106 linetype 6 linewidth 6 linecolor rgbcolor '#00FF00'
set style line 107 linetype 7 linewidth 4 linecolor rgbcolor '#0000A0'
set style line 108 linetype 8 linewidth 4 linecolor rgbcolor '#1E90FF'
set style line 109 linetype 9 linewidth 4 linecolor rgbcolor '#A020F0'

set key off

# TODO: set origin and size as options or calculate.
set origin 0.02,0
set size 0.98,1
set ytics
set xtics
set border
set colorbox
set xrange [-3:3]
set grid xtics
set mxtics
set xlabel "x" font "lucon.ttf,30"

set format y ""
set format x ""
set grid ytics
set mytics
set my2tics
set ylabel "f(x)" font "lucon.ttf,30"
#set ytics nomirror
#set y2tics nomirror
set label 1 "2005-2017 © eigenholser" \
    at screen 0.99,0.014 right font "times.ttf,12"
#set label 2 "f(x) = x^3 + 3x^2 - 13x + 42" at screen 0.21,0.865 left font "times.ttf,30"
#set label 3 "f(x) = α(x^3 + x^2 - 26x + 24) + 2x^2 + 13x + 18" at screen 0.21,0.830 left font "times.ttf,30"
#set title "Cubic polynomials passing through points (-4,50) and (1,40)" font "lucon.ttf,30"

# Greek α symbol is U03B1
f(x) = x**3 + 3*x**2 - 13.0*x + 42
x1 = -6
x2 = 1
x3 = 4
set style line 1 pointtype 7 linecolor rgb '#000000' pointsize 4
plot 0 with lines linestyle 100
#plot \
#    -120*x - 300 axes x1y1 not with lines linestyle 102, \
#    90*x**2 -20*x - 90 axes x1y1 not with lines linestyle 102, \
#    12*x**3 - 8*x**2 - 20*x - 100  axes x1y1 not with lines linestyle 102, \
#    2*x**4 - 19*x**3 + 3*x**2 + x - 300 axes x1y1 not with lines linestyle 102

error: pathspec 'figures/gnuplot/background-default.gp' did not match any file(s) known to git