eschen42

cannot install formula gitfs

steps to recreate

build and run .linuxbrew/Dockerfile image

run the following in bash and observe output

linuxbrew@78f515fa1f4d:~$ brew update
Already up-to-date.

linuxbrew@78f515fa1f4d:~$ brew update
Already up-to-date.

eschen42

#!/bin/sh
# Run bash within an already-running container
# arg1 - ID or nickname of a running container
if [ "'${COLUMNS}x'" = "'x'" ]; then
  echo Please 'export COLUMNS' before running this script.
else
 sudo docker exec -ti $1 bash -c "export TERM=xterm; export COLUMNS=$COLUMNS; /bin/bash"
fi

eschen42

ref:

• https://github.com/docker/machine/releases
• http://rancher.com/docs/os/v1.1/en/running-rancheros/workstation/docker-machine/#using-docker-machine-with-virtualbox

connect_rancheros

#!/bin/bash
docker-machine ssh rancher

eschen42

#!/bin/bash
# emit skeletion of DockerFile for the image given by the first (and only) argument
echo "# Here is a skeleton DockerFile for docker image '$1'"
docker history --no-trunc $1 \
| sed '1 d; s/.* ago [ ]*/RUN /; s/[ ][ ]*[0-9.][0-9.]*[kMG]*B[ ][ ]*$//; s/^RUN .bin.sh -c #.nop. [ ]*//' \
| tac

eschen42

# ref: https://gist.github.com/eschen42/d5b7850ea74c6dd8f37714f7d48955fc

# Objective - To create a Docker environment in which I can run planemo
# To build 
#    sudo docker build -t eschen42/planemo .
# To run and delete the container on exit
#    sudo docker run --rm -ti eschen42/planemo
# You will be logged in as the 'debian' user without superuser privileges.
# For superuser privileges, supply arguments, e.g.:
#    sudo docker run --rm -ti eschen42/planemo bash -c "export TERM=xterm; /bin/bash"

eschen42

# RStudio with vignette-building capability
# Step 1 - build from this Dockerfile
#    docker build -t eschen42/devtools .
# Step 2 - create a home directory
#    mkdir ~/rstudio
# Step 3 - run the container with this new directory
#    docker run --rm -ti -p 8787:8787 -v ~/rstudio:/home/rstudio eschen42/devtools
# Step 4 - browse to RStudio as http://localhost:8787

FROM rocker/verse:3.4.3

eschen42

# Planemo and RStudio with vignette-building capability (via R package 'devtools')
# Step 1 - Build from this Dockerfile (you must cd to the directory containing it first)
#               docker build -t eschen42/devplan .
# Step 2 - Create a home directory, e.g.:
#               mkdir ~/devplan
# Step 3 - Run the container with this new directory; note that the container will create
#          files in this directory with UID 1000 (which is user rstudio on the guest), e.g.:
#               docker run --name devplan --rm -ti -p 8787:8787 -p 8790:9090 -v ~/devplan:/home/rstudio eschen42/devplan
# Step 4 - On the host, browse to RStudio at http://localhost:8787
# Step 5 - Set up /home/rstudio/.ssh (on the guest; ~/devplan/.ssh on the host) if desired

eschen42

## # References
##   - https://www.tug.org/texlive/doc/texlive-en/texlive-en.html - The TEX Live Guide
##   - http://tug.org/texlive/acquire-netinstall.html - Installing TeX Live over the Internet
##     - This documents where to get install-tl, the TEX Live installer
##   - http://tug.org/texlive/quickinstall.html - TeX Live - Quick install
##     - This documents how to install install-tl, the TEX Live installer
##     - Note that, if you want to run the GUI, you will need to install 
##       - the perl-tk package on Debian, Ubuntu, and other apt-based distributions
##       - something similar on other distributions ...
##   - http://tug.org/texlive/doc/install-tl.html#PROFILES

eschen42

from bioblend import galaxy
galaxy_url = 'http://localhost:9087'
my_api_key = '31df2af1726af56b8bd122f892978529'
history_id = u'f2db41e1fa331b3e'
dataset_id = u'f597429621d6eb2b'
def generate_dataset_metadata(contentsList):
    for x in contentsList: 
        if not x["deleted"]:
            yield {'deleted': x["deleted"], 'hid': x["hid"], 'id': x["id"], 'name': x["name"]}
def show_datasets(history_id):

eschen42

procedure Apply(f, L)
   local result, x
   result := []
   every x := !L do put(result, f(x)) | fail
   return result
end

procedure Reduce(f, L)
   if *L > 1 
      then return f( L[1], Reduce( f, L[2:0] ) )