mungo

IMPORTANT WARNING mungo is experimental, things are very likely to break.

mungo acts as a drop-in replacement for conda create and conda install - but with way faster environment resolution. The improvements in speed are achieved by employing linear programming instead of sat-solving and caching of intermediate results (see "The ILP" for more information).

Note that we do not want to replace conda - we merely wish to share our solution so that it can be tested and perhaps someday be integrated into conda itself.

Caveats

mungo only exposes basic functionality:
- install (package_spec)+ (--name NAME)? (--channel CHANNEL)* (--file FILE)?
- create (package_spec)* (--name NAME)? (--channel CHANNEL)* (--file FILE)?
mungo's solutions will not be the same as conda's.
mungo cannot handle custom channel urls. Any channel which has repodata.json.bz2 files available from https://conda.anaconda.org/CHANNEL/ARCH is fine, though.
mungo only reads channels from ~/.condarc (but also uses the --channel arguments, if supplied, of course).
mungo only supports linux at the moment.

Installation

You need a working conda installation, since actual package installation is delegated to conda.

from PIP

pip install mungo

Examples

# create an environment named 'foo' with the specified packages
mungo create -n foo "python>=3.7" pulp packaging pyyaml

# create an environment from an environment file (such as mungo.yml)
mungo create --file mungo.yml

# install packages into the current environment
mungo install bwa

# install packages into a different environment
mungo install -n foo bwa

The ILP

mungo uses an integer linear program to determine a configuration of compatible packages which maximizes version numbers while also keeping channel order in mind.

alt text

After merging, ILP variables ∈ {0, 1} are created for each p-node. These variables relate to (package, version) configurations and tell us whether a configuration is selected for installation (1) or not (0). In a second step, the following ILP constraints are generated from the constrain nodes defined above: For each parent p (variable), the sum of all children (variables) C must be greater or equal to p; in other words: If p is selected, at least one available version of each dependent package must also be selected. If p is not selected for installation (i.e. p = 0), installation status of its dependencies is not relevant (for p).

alt text

Changelog

version 0.1.4: Show packages that get updated/downgraded/installed.
version 0.1.3: Prioritize channels over version numbers. Add '-y/--yes' flag to skip package installation confirmation.
version 0.1.0: Initial version.

Release files for mungo 0.8.1

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for mungo 0.8.1
File	Size	Uploaded
mungo-0.8.1.tar.gz	170.5 kB	Jun 13, 2019	Details

Release files / mungo-0.8.1.tar.gz

Download URL	mungo-0.8.1.tar.gz
Size	170.5 kB
Tags	Source
SHA-256 checksum How to use checksums	`bb5e0e5996870048d204de733ac7f1d0a575fa8953f1a2cba5e358230c197f81`
BLAKE2b-256 checksum How to use checksums	`efb18a2a3a08b28590338cca60a410fc5805121973d75bf04977508ee13d4911`
Upload date	Jun 13, 2019
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/1.13.0 pkginfo/1.4.2 requests/2.21.0 setuptools/40.8.0 requests-toolbelt/0.8.0 tqdm/4.28.1 CPython/3.7.3`