Update all package packages that do not come from conda

Question

On my Windows 7 system, I am trying to install as many packages using conda. They are easy to update with

conda update all 

Unfortunately, some packages do not appear in the cond, but are available through pip, so for those that I install them with pip. Updating all package packages in windows seems more complicated, but

 for /F "delims===" %i in ('pip freeze -l') do pip install -U %i 

- This is one way to find.

However, this is an attempt to update all packages, even those installed by conda, I believe.

Is there a way to upgrade only those packages that are installed in pip?

Answer 1

Here is my attempt at a shell script that will parse the output of conda env export and update any PIP packages:

 #!/bin/sh ############################################################################### # Script to scan an Anaconda environment and upgrade any PIP packages. # # Usage: # $ ./upgrade_pip_packages.sh # or explicitly give it an environment file to parse: # $ ./upgrade_pip_packages.sh <environment.yml file> # # Author: Marijn van Vliet < [e-mail] > # # Version: 1.0 (29-09-2017) # - Initial version of the script. # Check for optional command line argument if [ "$#" = 0 ] then ENV_OUTPUT=`conda env export` elif [ "$#" = 1 ] then ENV_OUTPUT=`cat $1` else echo "Usage: $0 [environment file]" >&2 exit 1 fi PIP=0 # Whether we are parsing PIP packages IFS=$'\n' # Split on newlines PIP_PACKAGES="" # PIP packages found thus far # Loop over the output of "conda env export" for line in $ENV_OUTPUT do # Don't do anything until we get to the packages installed by PIP if [ "$line" = "- pip:" ] then PIP=1 # From this point, start doing things. elif [[ "$line" = prefix:* ]] then PIP=0 # End of PIP package list. Stop doing things. elif [ $PIP = 1 ] then # Packages are listed as " - name==version==python_version" # This is a regular expression that matches only the name and # strips quotes in git URLs: REGEXP='^ - "\?\([^="]*\)"\?.*$' # Find PIP package name (or git URL) PIP_PACKAGES="$PIP_PACKAGES `echo "$line" | sed -n "s/$REGEXP/\1/p"`" fi done # From now on, split on spaces IFS=' ' echo "The following packages are marked for upgrade using PIP:" echo for package in $PIP_PACKAGES do echo " - $package" done echo read -r -p "Shall we proceed with the upgrade? [y/N] " response case "$response" in [yY][eE][sS]|[yY]) # Upgrade each package for package in $PIP_PACKAGES do pip install --upgrade $package done ;; *) echo "Aborting" ;; esac 

Answer 2

This is tricky as Pip packages are different from conda packages. Anaconda adds pip as an installation option and puts them in the environment, but does not manage them. Pip still doesn't have an easy command to update all but a few suggestions, as you tried, and this is different:

 pip freeze --local | grep -v '^\-e' | cut -d = -f 1 | xargs pip install -U