renamed PMCminer source directory /src

bergmanlab · Jun 26, 2014 · b793fc8 · b793fc8
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diff --git a/PMCminer/LICENSE.markdown → src/LICENSE.markdown b/PMCminer/LICENSE.markdown → src/LICENSE.markdown
diff --git a/PMCminer/PMCminer.conf → src/PMCminer.conf b/PMCminer/PMCminer.conf → src/PMCminer.conf
diff --git a/PMCminer/README.markdown → src/README.markdown b/PMCminer/README.markdown → src/README.markdown
diff --git a/PMCminer/__init__.py → src/__init__.py b/PMCminer/__init__.py → src/__init__.py
diff --git a/PMCminer/control/__init__.py → src/control/__init__.py b/PMCminer/control/__init__.py → src/control/__init__.py
diff --git a/PMCminer/control/__init__.pyc → src/control/__init__.pyc b/PMCminer/control/__init__.pyc → src/control/__init__.pyc
diff --git a/PMCminer/control/interactions.conf → src/control/interactions.conf b/PMCminer/control/interactions.conf → src/control/interactions.conf
diff --git a/PMCminer/control/settings.py → src/control/settings.py b/PMCminer/control/settings.py → src/control/settings.py
diff --git a/PMCminer/control/settings.pyc → src/control/settings.pyc b/PMCminer/control/settings.pyc → src/control/settings.pyc
diff --git a/PMCminer/control/settings.py~ → src/control/settings.py~ b/PMCminer/control/settings.py~ → src/control/settings.py~
diff --git a/PMCminer/control/species.conf → src/control/species.conf b/PMCminer/control/species.conf → src/control/species.conf
diff --git a/PMCminer/control/species.conf~ → src/control/species.conf~ b/PMCminer/control/species.conf~ → src/control/species.conf~
diff --git a/PMCminer/ecologIEmethods.markdown → src/ecologIEmethods.markdown b/PMCminer/ecologIEmethods.markdown → src/ecologIEmethods.markdown
diff --git a/PMCminer/pmcminer.py → src/pmcminer.py b/PMCminer/pmcminer.py → src/pmcminer.py
diff --git a/.../pmcminer/Analysis/AnalyseInteractions.py → src/pmcminer/Analysis/AnalyseInteractions.py b/.../pmcminer/Analysis/AnalyseInteractions.py → src/pmcminer/Analysis/AnalyseInteractions.py
diff --git a/...pmcminer/Analysis/AnalyseInteractions.pyc → ...pmcminer/Analysis/AnalyseInteractions.pyc b/...pmcminer/Analysis/AnalyseInteractions.pyc → ...pmcminer/Analysis/AnalyseInteractions.pyc
diff --git a/...pmcminer/Analysis/AnalyseLinnaeusFiles.py → ...pmcminer/Analysis/AnalyseLinnaeusFiles.py b/...pmcminer/Analysis/AnalyseLinnaeusFiles.py → ...pmcminer/Analysis/AnalyseLinnaeusFiles.py
diff --git a/...mcminer/Analysis/AnalyseLinnaeusFiles.pyc → ...mcminer/Analysis/AnalyseLinnaeusFiles.pyc b/...mcminer/Analysis/AnalyseLinnaeusFiles.pyc → ...mcminer/Analysis/AnalyseLinnaeusFiles.pyc
diff --git a/...cminer/Analysis/BuildInteractionsTable.py → ...cminer/Analysis/BuildInteractionsTable.py b/...cminer/Analysis/BuildInteractionsTable.py → ...cminer/Analysis/BuildInteractionsTable.py
diff --git a/...miner/Analysis/BuildInteractionsTable.pyc → ...miner/Analysis/BuildInteractionsTable.pyc b/...miner/Analysis/BuildInteractionsTable.pyc → ...miner/Analysis/BuildInteractionsTable.pyc
diff --git a/PMCminer/pmcminer/Analysis/Checkdiversity.py → src/pmcminer/Analysis/Checkdiversity.py b/PMCminer/pmcminer/Analysis/Checkdiversity.py → src/pmcminer/Analysis/Checkdiversity.py
diff --git a/...iner/pmcminer/Analysis/Checkdiversity.pyc → src/pmcminer/Analysis/Checkdiversity.pyc b/...iner/pmcminer/Analysis/Checkdiversity.pyc → src/pmcminer/Analysis/Checkdiversity.pyc
diff --git a/...r/pmcminer/Analysis/LocateInteractions.py → src/pmcminer/Analysis/LocateInteractions.py b/...r/pmcminer/Analysis/LocateInteractions.py → src/pmcminer/Analysis/LocateInteractions.py
diff --git a/.../pmcminer/Analysis/LocateInteractions.pyc → src/pmcminer/Analysis/LocateInteractions.pyc b/.../pmcminer/Analysis/LocateInteractions.pyc → src/pmcminer/Analysis/LocateInteractions.pyc
diff --git a/PMCminer/pmcminer/Analysis/SummaryStats.py → src/pmcminer/Analysis/SummaryStats.py b/PMCminer/pmcminer/Analysis/SummaryStats.py → src/pmcminer/Analysis/SummaryStats.py
diff --git a/PMCminer/pmcminer/Analysis/SummaryStats.pyc → src/pmcminer/Analysis/SummaryStats.pyc b/PMCminer/pmcminer/Analysis/SummaryStats.pyc → src/pmcminer/Analysis/SummaryStats.pyc
diff --git a/PMCminer/pmcminer/Analysis/__init__.py → src/pmcminer/Analysis/__init__.py b/PMCminer/pmcminer/Analysis/__init__.py → src/pmcminer/Analysis/__init__.py
diff --git a/PMCminer/pmcminer/Analysis/__init__.pyc → src/pmcminer/Analysis/__init__.pyc b/PMCminer/pmcminer/Analysis/__init__.pyc → src/pmcminer/Analysis/__init__.pyc
diff --git a/PMCminer/pmcminer/Linnaeus/PyLinnaeus.py → src/pmcminer/Linnaeus/PyLinnaeus.py b/PMCminer/pmcminer/Linnaeus/PyLinnaeus.py → src/pmcminer/Linnaeus/PyLinnaeus.py
diff --git a/PMCminer/pmcminer/Linnaeus/PyLinnaeus.pyc → src/pmcminer/Linnaeus/PyLinnaeus.pyc b/PMCminer/pmcminer/Linnaeus/PyLinnaeus.pyc → src/pmcminer/Linnaeus/PyLinnaeus.pyc
diff --git a/...r/pmcminer/Linnaeus/Spp_dict_stopwords.py → src/pmcminer/Linnaeus/Spp_dict_stopwords.py b/...r/pmcminer/Linnaeus/Spp_dict_stopwords.py → src/pmcminer/Linnaeus/Spp_dict_stopwords.py
diff --git a/PMCminer/pmcminer/Linnaeus/__init__.py → src/pmcminer/Linnaeus/__init__.py b/PMCminer/pmcminer/Linnaeus/__init__.py → src/pmcminer/Linnaeus/__init__.py
diff --git a/PMCminer/pmcminer/Linnaeus/__init__.pyc → src/pmcminer/Linnaeus/__init__.pyc b/PMCminer/pmcminer/Linnaeus/__init__.pyc → src/pmcminer/Linnaeus/__init__.pyc
diff --git a/PMCminer/pmcminer/ProcessFiles/Articles.py → src/pmcminer/ProcessFiles/Articles.py b/PMCminer/pmcminer/ProcessFiles/Articles.py → src/pmcminer/ProcessFiles/Articles.py
diff --git a/PMCminer/pmcminer/ProcessFiles/Articles.pyc → src/pmcminer/ProcessFiles/Articles.pyc b/PMCminer/pmcminer/ProcessFiles/Articles.pyc → src/pmcminer/ProcessFiles/Articles.pyc
diff --git a/...ner/pmcminer/ProcessFiles/CleanupFiles.py → src/pmcminer/ProcessFiles/CleanupFiles.py b/...ner/pmcminer/ProcessFiles/CleanupFiles.py → src/pmcminer/ProcessFiles/CleanupFiles.py
diff --git a/...er/pmcminer/ProcessFiles/CleanupFiles.pyc → src/pmcminer/ProcessFiles/CleanupFiles.pyc b/...er/pmcminer/ProcessFiles/CleanupFiles.pyc → src/pmcminer/ProcessFiles/CleanupFiles.pyc
diff --git a/...iner/ProcessFiles/Pure/ArticleScrubber.py → ...iner/ProcessFiles/Pure/ArticleScrubber.py b/...iner/ProcessFiles/Pure/ArticleScrubber.py → ...iner/ProcessFiles/Pure/ArticleScrubber.py
diff --git a/...ner/ProcessFiles/Pure/ArticleScrubber.pyc → ...ner/ProcessFiles/Pure/ArticleScrubber.pyc b/...ner/ProcessFiles/Pure/ArticleScrubber.pyc → ...ner/ProcessFiles/Pure/ArticleScrubber.pyc
diff --git a/...er/ProcessFiles/Pure/PurifyArticleSet.pyc → ...er/ProcessFiles/Pure/PurifyArticleSet.pyc b/...er/ProcessFiles/Pure/PurifyArticleSet.pyc → ...er/ProcessFiles/Pure/PurifyArticleSet.pyc
diff --git a/...er/pmcminer/ProcessFiles/Pure/__init__.py → src/pmcminer/ProcessFiles/Pure/__init__.py b/...er/pmcminer/ProcessFiles/Pure/__init__.py → src/pmcminer/ProcessFiles/Pure/__init__.py
diff --git a/...r/pmcminer/ProcessFiles/Pure/__init__.pyc → src/pmcminer/ProcessFiles/Pure/__init__.pyc b/...r/pmcminer/ProcessFiles/Pure/__init__.pyc → src/pmcminer/ProcessFiles/Pure/__init__.pyc
diff --git a/...ner/ProcessFiles/Pure/purifyArticleSet.py → ...ner/ProcessFiles/Pure/purifyArticleSet.py b/...ner/ProcessFiles/Pure/purifyArticleSet.py → ...ner/ProcessFiles/Pure/purifyArticleSet.py
diff --git a/PMCminer/pmcminer/ProcessFiles/Raw.py → src/pmcminer/ProcessFiles/Raw.py b/PMCminer/pmcminer/ProcessFiles/Raw.py → src/pmcminer/ProcessFiles/Raw.py
diff --git a/PMCminer/pmcminer/ProcessFiles/Raw.pyc → src/pmcminer/ProcessFiles/Raw.pyc b/PMCminer/pmcminer/ProcessFiles/Raw.pyc → src/pmcminer/ProcessFiles/Raw.pyc
diff --git a/PMCminer/pmcminer/ProcessFiles/__init__.py → src/pmcminer/ProcessFiles/__init__.py b/PMCminer/pmcminer/ProcessFiles/__init__.py → src/pmcminer/ProcessFiles/__init__.py
diff --git a/PMCminer/pmcminer/ProcessFiles/__init__.pyc → src/pmcminer/ProcessFiles/__init__.pyc b/PMCminer/pmcminer/ProcessFiles/__init__.pyc → src/pmcminer/ProcessFiles/__init__.pyc
diff --git a/PMCminer/pmcminer/__init__.py → src/pmcminer/__init__.py b/PMCminer/pmcminer/__init__.py → src/pmcminer/__init__.py
diff --git a/PMCminer/pmcminer/__init__.pyc → src/pmcminer/__init__.pyc b/PMCminer/pmcminer/__init__.pyc → src/pmcminer/__init__.pyc
diff --git a/PMCminer/pmcminer/testing/subject_test.py → src/pmcminer/testing/subject_test.py b/PMCminer/pmcminer/testing/subject_test.py → src/pmcminer/testing/subject_test.py
diff --git a/...iner/species_dictionaries/README.markdown → src/species_dictionaries/README.markdown b/...iner/species_dictionaries/README.markdown → src/species_dictionaries/README.markdown
diff --git a/...pecies_dictionaries/col_dict_stopwords.py → ...pecies_dictionaries/col_dict_stopwords.py b/...pecies_dictionaries/col_dict_stopwords.py → ...pecies_dictionaries/col_dict_stopwords.py
diff --git a/...dictionaries/species_dict_x_years.join.py → ...dictionaries/species_dict_x_years.join.py b/...dictionaries/species_dict_x_years.join.py → ...dictionaries/species_dict_x_years.join.py
diff --git a/PMCminer/species_dictionaries/species_dicts → src/species_dictionaries/species_dicts b/PMCminer/species_dictionaries/species_dicts → src/species_dictionaries/species_dicts