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Description
Example using planemo installed under conda using Python 3.6.3:
$ planemo --version
planemo, version 0.47.0
$ planemo tool_init -i head -n head --help_from_command "head --help"
Tool written to head.xml
$ more head.xml
<tool id="head" name="head" version="0.1.0">
<requirements>
</requirements>
<command detect_errors="exit_code"><![CDATA[
TODO: Fill in command template.
]]></command>
<inputs>
</inputs>
<outputs>
</outputs>
<help><![CDATA[
b"Usage: head [OPTION]... [FILE]...\nPrint the first 10 lines of each FILE to standard output.\nWith more t
han one FILE, precede each with a header giving the file name.\nWith no FILE, or when FILE is -, read standard inpu
t.\n\nMandatory arguments to long options are mandatory for short options too.\n -c, --bytes=[-]K print th
e first K bytes of each file;\n with the leading '-', print all but the last\n
K bytes of each file\n -n, --lines=[-]K print the first K lines instead of the first 1
0;\n with the leading '-', print all but the last\n K lines
of each file\n -q, --quiet, --silent never print headers giving file names\n -v, --verbose always
print headers giving file names\n --help display this help and exit\n --version output version infor
mation and exit\n\nK may have a multiplier suffix:\nb 512, kB 1000, K 1024, MB 1000*1000, M 1024*1024,\nGB 1000*100
0*1000, G 1024*1024*1024, and so on for T, P, E, Z, Y.\n\nGNU coreutils online help: <http://www.gnu.org/software/c
oreutils/>\nFor complete documentation, run: info coreutils 'head invocation'\n"
]]></help>
<citations>
</citations>
</tool>
Notice the help text was captured as a bytes string, and presented as such in the XML output (b"Usage: ...)
I have not delved into the code base to see how other bytes-string/unicode issues have been dealt with in planemo for stdout/stderr from command line tools.
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