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planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
author mvdbeek
date Wed, 23 Nov 2016 07:46:20 -0500
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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1 # Location of virtualenv used for development.
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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2 VENV?=.venv
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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3 BRANCH=curie2
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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4 GALAXY_REPO=https://github.com/mvdbeek/galaxy.git
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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5 CONDA_PREFIX?=.conda
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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6 CONDA_PREFIX_PATH?=`readlink -e .conda`
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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7 # Source virtualenv to execute command (flake8, sphinx, twine, etc...)
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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8 IN_VENV=if [ -f $(VENV)/bin/activate ]; then . $(VENV)/bin/activate; fi;
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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9 PLANEMO=$(IN_VENV) planemo
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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11 setup-venv: ## setup a development virutalenv in current directory
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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12 if [ ! -d $(VENV) ]; then virtualenv $(VENV); exit; fi;
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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13 $(IN_VENV) pip install -r requirements.txt;
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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14 $(IN_VENV) pip install planemo
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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16 lint-35: setup-venv
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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17 $(IN_VENV) pip install tox && $(IN_VENV) tox -e py35-lint
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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19 lint-27: setup-venv
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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20 $(IN_VENV) pip install tox && $(IN_VENV) tox -e py27-lint
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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22 db:
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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23 if [ ! -d db_gx_rev_0127.sqlite ]; then wget https://github.com/jmchilton/galaxy-downloads/raw/master/db_gx_rev_0127.sqlite ; exit; fi;
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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25 setup_galaxy_clone:
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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26 if [ ! -d .galaxy ]; then git clone --depth=50 --branch $(BRANCH) $(GALAXY_REPO) .galaxy; exit; fi;
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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28 planemo-test: db setup-venv setup_galaxy_clone
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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29 if [ ! -d $(CONDA_PREFIX) ]; then $(PLANEMO) conda_init --conda_prefix $(CONDA_PREFIX);fi && \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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30 $(PLANEMO) conda_install --conda_prefix $(CONDA_PREFIX_PATH) . && \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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31 $(PLANEMO) test \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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32 --galaxy_database_seed db_gx_rev_0127.sqlite \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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33 --galaxy_root .galaxy \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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34 --galaxy_source $(GALAXY_REPO) \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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35 --galaxy_branch $(BRANCH) \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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36 --conda_dependency_resolution \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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37 --conda_prefix $(CONDA_PREFIX_PATH)
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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38
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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39 planemo-serve: db setup-venv setup_galaxy_clone
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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40 $(PLANEMO) serve \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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41 --galaxy_database_seed db_gx_rev_0127.sqlite \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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42 --galaxy_root .galaxy \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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43 --galaxy_source $(GALAXY_REPO) \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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44 --galaxy_branch $(BRANCH) \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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45 --conda_auto_install \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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46 --conda_dependency_resolution \
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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47 --conda_prefix $(CONDA_PREFIX_PATH)
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
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48
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
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49 py-test:
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
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50 $(IN_VENV) python test/test_dedup_hash.py
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
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51
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
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52 clean:
627dc826a68f planemo upload for repository https://github.com/mvdbeek/dedup_hash commit 367da560c5924d56c39f91ef9c731e523825424b-dirty
mvdbeek
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53 rm -Rf *.sqlite* .venv .conda .galaxy dist/ *.egg-info tool_test_output.* .tox || true