diff --git a/build.sbt b/build.sbt index a34239810..6e970d52f 100644 --- a/build.sbt +++ b/build.sbt @@ -122,8 +122,8 @@ lazy val root = Project(id="fgbio", base=file(".")) "org.scala-lang" % "scala-reflect" % scalaVersion.value, "org.scala-lang" % "scala-compiler" % scalaVersion.value, "org.scala-lang.modules" %% "scala-xml" % "1.0.6", - "com.fulcrumgenomics" %% "commons" % "0.4.0-619783e-SNAPSHOT", - "com.fulcrumgenomics" %% "sopt" % "0.3.1", + "com.fulcrumgenomics" %% "commons" % "0.4.0", + "com.fulcrumgenomics" %% "sopt" % "0.4.0", "com.github.samtools" % "htsjdk" % "2.13.0" excludeAll(htsjdkExcludes: _*), "net.jafama" % "jafama" % "2.1.0", "org.apache.commons" % "commons-math3" % "3.6.1", diff --git a/project/build.properties b/project/build.properties index 394cb75cf..31334bbd3 100644 --- a/project/build.properties +++ b/project/build.properties @@ -1 +1 @@ -sbt.version=1.0.4 +sbt.version=1.1.1 diff --git a/project/plugins.sbt b/project/plugins.sbt index 3761358db..6d47c1259 100644 --- a/project/plugins.sbt +++ b/project/plugins.sbt @@ -4,6 +4,6 @@ addSbtPlugin("com.typesafe.sbt" % "sbt-git" % "0.9.3") addSbtPlugin("com.github.gseitz" % "sbt-release" % "1.0.6") addSbtPlugin("com.eed3si9n" % "sbt-assembly" % "0.14.6") addSbtPlugin("org.scoverage" % "sbt-scoverage" % "1.5.1") -addSbtPlugin("org.xerial.sbt" % "sbt-sonatype" % "2.0") +addSbtPlugin("org.xerial.sbt" % "sbt-sonatype" % "2.2") addSbtPlugin("com.jsuereth" % "sbt-pgp" % "1.1.0") addSbtPlugin("net.virtual-void" % "sbt-dependency-graph" % "0.9.0") diff --git a/run_metrics_doclet.sh b/run_metrics_doclet.sh index 9ae2d430b..e663f1054 100755 --- a/run_metrics_doclet.sh +++ b/run_metrics_doclet.sh @@ -28,10 +28,12 @@ # Simple shell script to generate metrics documentation with scaladoc ############################################################################### +set -euo pipefail + # Uncomment the following line to turn on debugging when running scaladoc # JAVA_OPTS="-agentlib:jdwp=transport=dt_socket,server=y,suspend=y,address=7777" sources=$(find src/main/scala -name \*.scala) -cp=$(sbt -Dsbt.log.noformat=true "export runtime:fullClasspath" 2> /dev/null | fgrep -v '[info]') +cp=$(sbt -Dsbt.log.noformat=true "export runtime:fullClasspath" 2> /dev/null | tail -n 1) scaladoc -toolcp $cp -d target -doc-generator com.fulcrumgenomics.internal.FgMetricsDoclet $sources diff --git a/sonatype.sbt b/sonatype.sbt index 1ade264c2..5a3ea3970 100644 --- a/sonatype.sbt +++ b/sonatype.sbt @@ -7,10 +7,6 @@ pomExtra in Global := { http://www.opensource.org/licenses/mit-license.html - - git@github.com:fulcrumgenomics/fgbio - scm:git:git@github.com:fulcrumgenomics/fgbio.git - nh13 diff --git a/version.sbt b/version.sbt index 404aa03e0..0d6d27c4b 100644 --- a/version.sbt +++ b/version.sbt @@ -1 +1 @@ -version in ThisBuild := "0.5.0-SNAPSHOT" +version in ThisBuild := "0.5.0"