<commit_before>FROM ubuntu:14.04

MAINTAINER <NAME> <<EMAIL>>

# Setup the system
RUN apt-get update -qq --fix-missing; \
  apt-get install -qq -y wget python python-pip python-dev zlib1g-dev;

RUN pip install numpy
RUN pip install bx-pyton

RUN mkdir /tools
RUN cd /tools

# Install Join tool
RUN wget -O gops_join.py https://raw.githubusercontent.com/galaxyproject/tools-devteam/d155d6caf747a7c59ebd6d5752c942e63a75939f/tool_collections/gops/join/gops_join.py
RUN ln -s /tools/gops_join.py /usr/bin
RUN chmod a+x /tools/gops_join.py

# Install Sort tool
RUN wget -O sorter.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/filters/sorter.py
# Add the shebang line to the script to make it standalone
RUN sed -i '1s/^/#!\/usr\/bin\/env python\n/' sorter.py
RUN ln -s /tools/sorter.py /usr/bin
RUN chmod a+x /tools/sorter.py


# Install Grouping tool
RUN wget -O grouping.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/stats/grouping.py
RUN ln -s /tools/grouping.py /usr/bin
RUN chmod a+x /tools/grouping.py


# Install Compare tool
RUN wget -O joinWrapper.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/filters/joinWrapper.py
RUN ln -s /tools/joinWrapper.py /usr/bin
RUN chmod a+x /tools/joinWrapper.py <commit_msg>Apparently must use full paths in RUN command<commit_after>FROM ubuntu:14.04

MAINTAINER <NAME> <<EMAIL>>

# Setup the system
RUN apt-get update -qq --fix-missing; \
  apt-get install -qq -y wget python python-pip python-dev zlib1g-dev;

RUN pip install numpy
RUN pip install bx-python

RUN mkdir /tools

# Install Join tool
RUN wget -O /tools/gops_join.py https://raw.githubusercontent.com/galaxyproject/tools-devteam/d155d6caf747a7c59ebd6d5752c942e63a75939f/tool_collections/gops/join/gops_join.py
RUN ln -s /tools/gops_join.py /usr/bin
RUN chmod a+x /tools/gops_join.py

# Install Sort tool
RUN wget -O /tools/sorter.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/filters/sorter.py
# Add the shebang line to the script to make it standalone
RUN sed -i '1s/^/#!\/usr\/bin\/env python\n/' /tools/sorter.py
RUN ln -s /tools/sorter.py /usr/bin
RUN chmod a+x /tools/sorter.py


# Install Grouping tool
RUN wget -O /tools/grouping.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/stats/grouping.py
RUN ln -s /tools/grouping.py /usr/bin
RUN chmod a+x /tools/grouping.py


# Install Compare tool
RUN wget -O /tools/joinWrapper.py https://bitbucket.org/galaxy/galaxy-central/raw/37fb229769f4a1cc02d7df26790c5c6f13e913d6/tools/filters/joinWrapper.py
RUN ln -s /tools/joinWrapper.py /usr/bin
RUN chmod a+x /tools/joinWrapper.py
{'fraction_non_alphanumeric': 0.11238779174147218, 'fraction_numerical': 0.07827648114901256, 'mean_word_length': 4.207476635514019, 'pattern_counts': {'":': 0, '<': 9, '<?xml version=': 0, '>': 9, 'https://': 8, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '1758489', 'n_tokens_mistral': 1241, 'n_tokens_neox': 1121, 'n_words': 246}