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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,16 @@ | ||
| # This file contains ipython configuration variables to be used for generating | ||
| # asciinema demos to guarantee consistent appearance. | ||
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| # make a fake temporary home dir and go into it | ||
| SCREENCAST_HOME=~/demo | ||
| if [ ! -e "$SCREENCAST_HOME" ]; then | ||
| mkdir -p ${SCREENCAST_HOME} || { | ||
| echo "FAILED to create $SCREENCAST_HOME" >&2 | ||
| exit 1; # we need demo directory! | ||
| } | ||
| fi | ||
| cd $SCREENCAST_HOME | ||
| ipython | ||
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| # cleanup at the end | ||
| trap "cd ; rm -rf ~/demo > /dev/null 2>&1" EXIT |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,112 @@ | ||
| #!/bin/bash | ||
| # | ||
| set -u -e | ||
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| test ! -e $1 && echo "input file does not exist" && exit 1 | ||
| title="$(echo $(basename $1) | sed -e 's/.sh$//')" | ||
| bashrc_file="$(dirname $0)/cast_ipython.rc" | ||
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| # shortcut for making xdotool use the right window | ||
| function xdt() { | ||
| winid=$1 | ||
| shift | ||
| xdotool windowactivate --sync $winid | ||
| if [ "$#" -gt 0 ]; then | ||
| xdotool "$@" | ||
| fi | ||
| } | ||
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| # make sure the target xterm is up and running | ||
| width=106 | ||
| height=29 | ||
| fs=15 | ||
| text_width=$(($width - 8)) | ||
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| geometry=${width}x${height} | ||
| this_window=$(xdotool getwindowfocus) | ||
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| # For consistent appearance | ||
| xterm +sb -fa Hermit -fs $fs -bg black -fg white -geometry $geometry -title Screencast-xterm -e "bash --rcfile cast_ipython.rc" & | ||
| xterm_pid=$! | ||
| sleep 2 | ||
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| xterm_window=$(xdotool search --pid $xterm_pid) | ||
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| # By default should stay in the xterm window, so when we need to deal with | ||
| # current one (waiting etc), then switch | ||
| function wait () { | ||
| xdt $this_window | ||
| read -p "$@" in | ||
| echo "$in" | ||
| xdt $xterm_window | ||
| } | ||
| function instruct () { | ||
| xdt $this_window | ||
| wait "$@" | ||
| } | ||
| function type () { | ||
| xdt $xterm_window type --clearmodifiers --delay 40 "$1" | ||
| } | ||
| function key () { | ||
| xdt $xterm_window key --clearmodifiers $* | ||
| } | ||
| function sleep () { | ||
| xdotool sleep $1 | ||
| } | ||
| function execute () { | ||
| xdt $xterm_window sleep 0.5 key Return | ||
| sleep 0.2 | ||
| } | ||
| function say() | ||
| { | ||
| ac=$(instruct "SAY: $1") | ||
| if [ "$ac" != "s" ] ; then | ||
| echo "skipping" | ||
| return | ||
| fi | ||
| type "$(printf "#\n# $1" | fmt -w ${text_width} --prefix '# ')" | ||
| key Return | ||
| } | ||
| function show () { | ||
| xdt $xterm_window type --clearmodifiers --delay 10 "$(printf "\n$1" | sed -e 's/^/# /g')" | ||
| sleep 0.1 | ||
| key Return | ||
| } | ||
| function run () { | ||
| help="Press Enter to type, s to skip this action" | ||
| ac=$(instruct "EXEC: $1. $help") | ||
| if [ "$ac" = "s" ]; then | ||
| echo "skipping" | ||
| return | ||
| fi | ||
| type "$1" | ||
| ac=$(instruct "EXEC: $1. $help") | ||
| if [ "$ac" = "s" ]; then | ||
| echo "skipping" | ||
| return | ||
| fi | ||
| execute | ||
| } | ||
| function run_expfail () { | ||
| # TODO we could announce or visualize the expected failure | ||
| run "$1" | ||
| } | ||
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| xdt $xterm_window sleep 0.1 | ||
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| echo "xterm PID $xterm_pid (window $xterm_window) this window $this_window" | ||
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| # now get the process tree attached to the terminal so we can | ||
| # figure out when it is idle, and when it is not | ||
| # XXX must happen after asciinema is running | ||
| xterm_pstree="$(pstree -p -A $xterm_pid)" | ||
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| . $1 | ||
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| sleep 1 | ||
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| show "$(cowsay "Demo was using $(datalad --version 2>&1 | head -n1). Discover more at http://datalad.org")" | ||
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| # key Control_L+d | ||
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| echo "INSTRUCTION: Press Ctrl-D or run exit to close the terminal" |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,100 @@ | ||
| say "Import nipype building blocks" | ||
| show "Import nipype building blocks" | ||
| run "from nipype import Node, Workflow" | ||
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| say "Import relevant interfaces" | ||
| show "Import relevant interfaces" | ||
| run "from nipype.interfaces.fsl import SliceTimer, MCFLIRT, Smooth" | ||
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| say "Create SliceTime correction node" | ||
| show "Create SliceTime correction node" | ||
| run "slicetimer = Node(SliceTimer(index_dir=False, | ||
| interleaved=True, | ||
| time_repetition=2.5), | ||
| name='slicetimer') | ||
| " | ||
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| say "Create Motion correction node" | ||
| show "Create Motion correction node" | ||
| run "mcflirt = Node(MCFLIRT(mean_vol=True, | ||
| save_plots=True), | ||
| name='mcflirt') | ||
| " | ||
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| say "Create Smoothing node" | ||
| show "Create Smoothing node" | ||
| run "smooth = Node(Smooth(fwhm=4), name='smooth')" | ||
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| say "Create Workflow" | ||
| show "Create Workflow" | ||
| run "preproc01 = Workflow(name='preproc01', base_dir='.')" | ||
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| say "Connect nodes within the workflow" | ||
| show "Connect nodes within the workflow" | ||
| run "preproc01.connect([(slicetimer, mcflirt, [('slice_time_corrected_file', 'in_file')]), | ||
| (mcflirt, smooth, [('out_file', 'in_file')])]) | ||
| " | ||
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| say "Create a visualization of the workflow" | ||
| show "Create a visualization of the workflow" | ||
| run "preproc01.write_graph(graph2use='orig')" | ||
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| say "Visualize the figure" | ||
| show "Visualize the figure" | ||
| run "!eog preproc01/graph_detailed.png | ||
| " | ||
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| say "Feed some input to the workflow" | ||
| show "Feed some input to the workflow" | ||
| run "slicetimer.inputs.in_file = 'path/to/your/func.nii.gz'" | ||
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| say "Run the Workflow and stop the time" | ||
| show "Run the Workflow and stop the time" | ||
| run "%time preproc01.run('MultiProc', plugin_args={'n_procs': 5})" | ||
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| say "Investigate the output" | ||
| show "Investigate the output" | ||
| run "!tree preproc01 -I '*js|*json|*pklz|_report|*.dot|*html'" | ||
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| say "Change the size of the smoothing kernel" | ||
| show "Change the size of the smoothing kernel" | ||
| run "smooth.inputs.fwhm = 2" | ||
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| say "Rerun the workflow" | ||
| show "Rerun the workflow" | ||
| run "%time preproc01.run('MultiProc', plugin_args={'n_procs': 5})" | ||
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| say "Create 4 additional copies of the workflow" | ||
| show "Create 4 additional copies of the workflow" | ||
| run "preproc02 = preproc01.clone('preproc02') | ||
| preproc03 = preproc01.clone('preproc03') | ||
| preproc04 = preproc01.clone('preproc04') | ||
| preproc05 = preproc01.clone('preproc05') | ||
| " | ||
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| say "Create a new workflow - metaflow" | ||
| show "Create a new workflow - metaflow" | ||
| run "metaflow = Workflow(name='metaflow', base_dir='.')" | ||
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| say "Add the 5 workflows to this metaflow" | ||
| show "Add the 5 workflows to this metaflow" | ||
| run "metaflow.add_nodes([preproc01, preproc02, preproc03, | ||
| preproc04, preproc05]) | ||
| " | ||
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| say "Visualize the workflow" | ||
| show "Visualize the workflow" | ||
| run "metaflow.write_graph(graph2use='flat') | ||
| !eog metaflow/graph_detailed.png | ||
| " | ||
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| say "Run this metaflow in parallel" | ||
| show "Run this metaflow in parallel" | ||
| run "%time metaflow.run('MultiProc', plugin_args={'n_procs': 5})" | ||
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| say "Investigate the output" | ||
| show "Investigate the output" | ||
| run "!tree metaflow -I '*js|*json|*pklz|_report|*.dot|*html'" | ||
|
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| say "The End." | ||
| show "The End." |
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