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.gitignore
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src-gen/
.gradle
.classpath
.project
bin
bin/conifer
bin/conifer/Main.class
results
build
pairContact.txt
tree.nwk.txt
src/main/resources/conifer/sampleInput/FES.ape.4.nwk
src/main/resources/conifer/sampleInput/FES.ape.8.nwk
src/main/resources/conifer/sampleInput/FES_4.fasta
src/main/resources/conifer/sampleInput/FES_4.g.fasta
src/main/resources/conifer/sampleInput/FES_8.fasta
src/main/resources/conifer/sampleInput/FES_8.g.fasta
src/main/resources/conifer/sampleInput/UTY.ape.4.nwk
src/main/resources/conifer/sampleInput/UTY_4.fasta
src/main/resources/conifer/sampleInput/UTY_4.g.fasta
final-tree.newick
primates.fasta
# Created by https://www.gitignore.io/api/intellij,intellij,java,gradle
### Intellij ###
# Covers JetBrains IDEs: IntelliJ, RubyMine, PhpStorm, AppCode, PyCharm, CLion, Android Studio and Webstorm
# Reference: https://intellij-support.jetbrains.com/hc/en-us/articles/206544839
# User-specific stuff:
.idea/workspace.xml
.idea/tasks.xml
.idea/dictionaries
.idea/vcs.xml
.idea/jsLibraryMappings.xml
# Sensitive or high-churn files:
.idea/dataSources.ids
.idea/dataSources.xml
.idea/dataSources.local.xml
.idea/sqlDataSources.xml
.idea/dynamic.xml
.idea/uiDesigner.xml
# Gradle:
.idea/gradle.xml
.idea/libraries
# Mongo Explorer plugin:
.idea/mongoSettings.xml
## File-based project format:
*.iws
## Plugin-specific files:
# IntelliJ
/out/
# mpeltonen/sbt-idea plugin
.idea_modules/
# JIRA plugin
atlassian-ide-plugin.xml
# Crashlytics plugin (for Android Studio and IntelliJ)
com_crashlytics_export_strings.xml
crashlytics.properties
crashlytics-build.properties
fabric.properties
### Intellij Patch ###
# Comment Reason: https://github.com/joeblau/gitignore.io/issues/186#issuecomment-215987721
# *.iml
# modules.xml
# .idea/misc.xml
# *.ipr
### Java ###
*.class
# Mobile Tools for Java (J2ME)
.mtj.tmp/
# Package Files #
*.jar
*.war
*.ear
# virtual machine crash logs, see http://www.java.com/en/download/help/error_hotspot.xml
hs_err_pid*
### Gradle ###
build/
# Ignore Gradle GUI config
gradle-app.setting
# Avoid ignoring Gradle wrapper jar file (.jar files are usually ignored)
!gradle-wrapper.jar
# Cache of project
.gradletasknamecache
# # Work around https://youtrack.jetbrains.com/issue/IDEA-116898
# gradle/wrapper/gradle-wrapper.properties
src/test/xtend-gen
data.fasta
small.fasta
.gitignore