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Top Forums Shell Programming and Scripting Xargs to call python executable to process multiple bam files Post 303042318 by RudiC on Saturday 21st of December 2019 09:00:10 AM
Old 12-21-2019
xargs is used to turn a stream on stdin into command line arguments / parameters. sh expects its commands on stdin. Try without xargs, like
Code:
echo "..." | sh


Or, use your .py as the xargs' command but make sure it will be interpreted by python (by defining the correct "shebang").
This User Gave Thanks to RudiC For This Post:
 

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PYTHON-CONFIG(1)					      General Commands Manual						  PYTHON-CONFIG(1)

NAME
python-config - output build options for python C/C++ extensions or embedding SYNOPSIS
python-config [ --prefix ] [ --exec-prefix ] [ --includes ] [ --libs ] [ --cflags ] [ --ldflags ] [ --help ] DESCRIPTION
python-config helps compiling and linking programs, which embed the Python interpreter, or extension modules that can be loaded dynamically (at run time) into the interpreter. OPTIONS
--cflags print the C compiler flags. --ldflags print the flags that should be passed to the linker. --includes similar to --cflags but only with -I options (path to python header files). --libs similar to --ldflags but only with -l options (used libraries). --prefix prints the prefix (base directory) under which python can be found. --exec-prefix print the prefix used for executable program directories (such as bin, sbin, etc). --help print the usage message. EXAMPLES
To build the singe-file c program prog against the python library, use gcc $(python-config --cflags --ldflags) progr.cpp -o progr.cpp The same in a makefile: CFLAGS+=$(shell python-config --cflags) LDFLAGS+=$(shell python-config --ldflags) all: progr To build a dynamically loadable python module, use gcc $(python-config --cflags --ldflags) -shared -fPIC progr.cpp -o progr.so SEE ALSO
python (1) http://docs.python.org/extending/extending.html /usr/share/doc/python/faq/extending.html AUTHORS
This manual page was written by Johann Felix Soden <johfel@gmx.de> for the Debian project (and may be used by others). November 27, 2011 PYTHON-CONFIG(1)
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