python-3.7.6: Add --prefix to pip

If pip finds the system installation path not writable, it falls
back to --user and installs into ~/.local.

Of course, when this script runs, its system installation path should
be writable. However, other errors in our environment, which prevent
$PREFIX from being written to, might go undetected because of the
fallback.

Specify --prefix to abort if $PREFIX is not writable.

python-3.7.6-0.build.sh

@@ -165,57 +165,57 @@ make install
 )
 
 python3 -m ensurepip
-pip3 install -I pip
+pip3 install --prefix=$PREFIX -I pip
 
-pip3 install ipython[all]
+pip3 install --prefix=$PREFIX ipython[all]
 
-pip3 install SciPy NumPy Matplotlib pandas SymPy nose statsmodels
+pip3 install --prefix=$PREFIX SciPy NumPy Matplotlib pandas SymPy nose statsmodels
 # clean up some dirt that statsmodels placed also into $PREFIX
 rm -vf $PREFIX/LICENSE.txt
 rm -vf $PREFIX/setup.cfg
 
-pip3 install Cython
-
-pip3 install pysam
-pip3 install seaborn
-pip3 install scikit-learn
-# pip3 install metaseq      # fails (Latest commit fa875d1 on Jan 10, 2017)
-pip3 install Mako
-pip3 install meson          # required in mariux
-
-pip3 install cutadapt       # Helpdesk 01/24/18 16:19, Sabrina Krakau
-pip3 install pygobject      # Helpdesk 03/26/18 14:19, Virginie Stanisla
-pip3 install blink1         # Blink1-lib 07/04/18 12:00, Niclas Hofmann
-
-pip3 install umi-tools
-pip3 install sphinx
-pip3 install recommonmark
-pip3 install fastcluster
-pip3 install pydot
-pip3 install pygraphviz
-pip3 install deeptools
-pip3 install HTSeq
-pip3 install keras
-pip3 install MotifScan      # Alena 30.8.2018
-pip3 install MAmotif
-pip3 install hic2cool       # Helpdesk Robert Schoepflin 17.09.2018
-# pip3 install hifive       # only python 2.7+
-pip3 install snakemake
-pip3 install virtualenv     # Donald
-pip3 install odfpy          # Donald
-pip3 install Dumper         # Thomas
-pip3 install igraph
-pip3 install louvain        # monocle3 prep for Helene
-pip3 install selenium       # 19.7.19 Kreitler  -> https://webxray.org/
-pip3 install cooltools      # Maria Valieva 17.7.2019
-pip3 install gmpy           # From viper context (Helpdesk Laura Glaser 9.8.2019)
-
-# pip3 install HiCExplorer  # Would be a nice to have, but it likes to downgrade too much, pick some cherries
-pip3 install HiCMatrix
-pip3 install pyGenomeTracks
-
-pip3 install python-bioformats
-
-pip3 install jupyterlab      # request Peter Arndt
+pip3 install --prefix=$PREFIX Cython
+
+pip3 install --prefix=$PREFIX pysam
+pip3 install --prefix=$PREFIX seaborn
+pip3 install --prefix=$PREFIX scikit-learn
+#pip3 install --prefix=$PREFIX metaseq      # fails (Latest commit fa875d1 on Jan 10, 2017)
+pip3 install --prefix=$PREFIX Mako
+pip3 install --prefix=$PREFIX meson          # required in mariux
+
+pip3 install --prefix=$PREFIX cutadapt       # Helpdesk 01/24/18 16:19, Sabrina Krakau
+pip3 install --prefix=$PREFIX pygobject      # Helpdesk 03/26/18 14:19, Virginie Stanisla
+pip3 install --prefix=$PREFIX blink1         # Blink1-lib 07/04/18 12:00, Niclas Hofmann
+
+pip3 install --prefix=$PREFIX umi-tools
+pip3 install --prefix=$PREFIX sphinx
+pip3 install --prefix=$PREFIX recommonmark
+pip3 install --prefix=$PREFIX fastcluster
+pip3 install --prefix=$PREFIX pydot
+pip3 install --prefix=$PREFIX pygraphviz
+pip3 install --prefix=$PREFIX deeptools
+pip3 install --prefix=$PREFIX HTSeq
+pip3 install --prefix=$PREFIX keras
+pip3 install --prefix=$PREFIX MotifScan      # Alena 30.8.2018
+pip3 install --prefix=$PREFIX MAmotif
+pip3 install --prefix=$PREFIX hic2cool       # Helpdesk Robert Schoepflin 17.09.2018
+#pip3 install --prefix=$PREFIX hifive       # only python 2.7+
+pip3 install --prefix=$PREFIX snakemake
+pip3 install --prefix=$PREFIX virtualenv     # Donald
+pip3 install --prefix=$PREFIX odfpy          # Donald
+pip3 install --prefix=$PREFIX Dumper         # Thomas
+pip3 install --prefix=$PREFIX igraph
+pip3 install --prefix=$PREFIX louvain        # monocle3 prep for Helene
+pip3 install --prefix=$PREFIX selenium       # 19.7.19 Kreitler  -> https://webxray.org/
+pip3 install --prefix=$PREFIX cooltools      # Maria Valieva 17.7.2019
+pip3 install --prefix=$PREFIX gmpy           # From viper context (Helpdesk Laura Glaser 9.8.2019)
+
+# pip3 install --prefix=$PREFIX HiCExplorer  # Would be a nice to have, but it likes to downgrade too much, pick some cherries
+pip3 install --prefix=$PREFIX HiCMatrix
+pip3 install --prefix=$PREFIX pyGenomeTracks
+
+pip3 install --prefix=$PREFIX python-bioformats
+
+pip3 install --prefix=$PREFIX jupyterlab      # request Peter Arndt
 
 exit