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Upgrade various dependencies
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- Remove ImgLib code that was hard to upgrade in favor of plain
  bio-formats/imageJ

- Remove omero code since I no longer have access to an omero server to
  test.
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cjfuller committed Mar 3, 2024
1 parent 610f6db commit 27cebbb
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Showing 22 changed files with 1,407 additions and 2,709 deletions.
19 changes: 7 additions & 12 deletions build.gradle
Original file line number Diff line number Diff line change
Expand Up @@ -7,19 +7,17 @@ plugins {
repositories {
mavenCentral()
maven {
url "https://maven.imagej.net/content/repositories/public"
url "https://maven.scijava.org/content/groups/public"
}
}

def kotlinVersion = "1.9.22"
def DepVersionLoci = "4.4.5"
def DepVersionIJ = "2.0.0-beta4"
def DepVersionImgLib = "2.0.0-beta5"
def DepVersionCommonsMath = "3.1.1"
def DepVersionJRuby = "1.7.0"
def VersionInfoFilename = "src/main/resources/edu/stanford/cfuller/imageanalysistools/resources/version_info.xml"
def bioFormatsVersion = "6.13.0"

def Version = "6.0.0"
def Version = "7.0.0"

task updateVersionInfo(type: Exec) {
commandLine "sh", "-c", (
Expand All @@ -33,15 +31,12 @@ dependencies {
testImplementation "junit:junit:4.10"
testImplementation "io.kotlintest:kotlintest:1.3.7"
implementation "org.apache.commons:commons-math3:$DepVersionCommonsMath"
implementation "loci:scifio:$DepVersionLoci"
implementation "loci:bio-formats:$DepVersionLoci"
implementation "loci:ome_tools:$DepVersionLoci"
implementation "net.imagej:ij-core:$DepVersionIJ"
implementation "net.imglib2:imglib2:$DepVersionImgLib"
implementation "net.imglib2:imglib2-io:$DepVersionImgLib"
implementation "net.imglib2:imglib2-algorithms:$DepVersionImgLib"
implementation "org.jruby:jruby:$DepVersionJRuby"
implementation "javax.xml.bind:jaxb-api:2.3.1"
implementation "net.imagej:ij:1.54h"
implementation "ome:formats-bsd:$bioFormatsVersion"
implementation "ome:formats-gpl:$bioFormatsVersion"

}

build.dependsOn updateVersionInfo
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