chore(deps): bump the minorandpatch group in /backend with 4 updates (#…

…1283)

* chore(deps): bump the minorandpatch group in /backend with 4 updates

Bumps the minorandpatch group in /backend with 4 updates: org.apache.commons:commons-compress, [org.testcontainers:postgresql](https://github.com/testcontainers/testcontainers-java), [org.jetbrains.kotlin.jvm](https://github.com/JetBrains/kotlin) and [org.jetbrains.kotlin.plugin.spring](https://github.com/JetBrains/kotlin).


Updates `org.apache.commons:commons-compress` from 1.26.0 to 1.26.1

Updates `org.testcontainers:postgresql` from 1.19.6 to 1.19.7
- [Release notes](https://github.com/testcontainers/testcontainers-java/releases)
- [Changelog](https://github.com/testcontainers/testcontainers-java/blob/main/CHANGELOG.md)
- [Commits](testcontainers/testcontainers-java@1.19.6...1.19.7)

Updates `org.jetbrains.kotlin.jvm` from 1.9.22 to 1.9.23
- [Release notes](https://github.com/JetBrains/kotlin/releases)
- [Changelog](https://github.com/JetBrains/kotlin/blob/v1.9.23/ChangeLog.md)
- [Commits](JetBrains/kotlin@v1.9.22...v1.9.23)

Updates `org.jetbrains.kotlin.plugin.spring` from 1.9.22 to 1.9.23
- [Release notes](https://github.com/JetBrains/kotlin/releases)
- [Changelog](https://github.com/JetBrains/kotlin/blob/v1.9.23/ChangeLog.md)
- [Commits](JetBrains/kotlin@v1.9.22...v1.9.23)

---
updated-dependencies:
- dependency-name: org.apache.commons:commons-compress
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.testcontainers:postgresql
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.jetbrains.kotlin.jvm
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.jetbrains.kotlin.plugin.spring
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
...

Signed-off-by: dependabot[bot] <support@github.com>

* chore(deps): bump the minorandpatch group in /backend with 4 updates

Bumps the minorandpatch group in /backend with 4 updates: org.apache.commons:commons-compress, [org.testcontainers:postgresql](https://github.com/testcontainers/testcontainers-java), [org.jetbrains.kotlin.jvm](https://github.com/JetBrains/kotlin) and [org.jetbrains.kotlin.plugin.spring](https://github.com/JetBrains/kotlin).


Updates `org.apache.commons:commons-compress` from 1.26.0 to 1.26.1

Updates `org.testcontainers:postgresql` from 1.19.6 to 1.19.7
- [Release notes](https://github.com/testcontainers/testcontainers-java/releases)
- [Changelog](https://github.com/testcontainers/testcontainers-java/blob/main/CHANGELOG.md)
- [Commits](testcontainers/testcontainers-java@1.19.6...1.19.7)

Updates `org.jetbrains.kotlin.jvm` from 1.9.22 to 1.9.23
- [Release notes](https://github.com/JetBrains/kotlin/releases)
- [Changelog](https://github.com/JetBrains/kotlin/blob/v1.9.23/ChangeLog.md)
- [Commits](JetBrains/kotlin@v1.9.22...v1.9.23)

Updates `org.jetbrains.kotlin.plugin.spring` from 1.9.22 to 1.9.23
- [Release notes](https://github.com/JetBrains/kotlin/releases)
- [Changelog](https://github.com/JetBrains/kotlin/blob/v1.9.23/ChangeLog.md)
- [Commits](JetBrains/kotlin@v1.9.22...v1.9.23)

---
updated-dependencies:
- dependency-name: org.apache.commons:commons-compress
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.testcontainers:postgresql
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.jetbrains.kotlin.jvm
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
- dependency-name: org.jetbrains.kotlin.plugin.spring
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: minorandpatch
...

Signed-off-by: dependabot[bot] <support@github.com>

* fix

---------

Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Chaoran Chen <mail@chaoran-chen.de>

backend/build.gradle

@@ -4,8 +4,8 @@ import org.gradle.api.tasks.testing.logging.TestLogEvent
 plugins {
     id 'org.springframework.boot' version '3.2.3'
     id 'io.spring.dependency-management' version '1.1.4'
-    id 'org.jetbrains.kotlin.jvm' version '1.9.22'
-    id 'org.jetbrains.kotlin.plugin.spring' version '1.9.22'
+    id 'org.jetbrains.kotlin.jvm' version '1.9.23'
+    id 'org.jetbrains.kotlin.plugin.spring' version '1.9.23'
     id 'org.jlleitschuh.gradle.ktlint' version '12.1.0'
     id 'org.springdoc.openapi-gradle-plugin' version '1.8.0'
 }
@@ -47,7 +47,7 @@ dependencies {
     implementation "org.springframework.boot:spring-boot-starter-oauth2-resource-server"
     implementation "org.springframework.boot:spring-boot-starter-security"
 
-    implementation 'org.apache.commons:commons-compress:1.26.0'
+    implementation 'org.apache.commons:commons-compress:1.26.1'
     implementation 'com.github.luben:zstd-jni:1.5.5-11'
     implementation 'org.tukaani:xz:1.9'
 
@@ -58,7 +58,7 @@ dependencies {
     testImplementation "io.jsonwebtoken:jjwt-impl:0.12.5"
     testImplementation "io.jsonwebtoken:jjwt-jackson:0.12.5"
     testImplementation "com.ninja-squad:springmockk:4.0.2"
-    testImplementation "org.testcontainers:postgresql:1.19.6"
+    testImplementation "org.testcontainers:postgresql:1.19.7"
     testImplementation "org.junit.platform:junit-platform-launcher:1.10.2"
 }
 

backend/src/test/kotlin/org/loculus/backend/controller/submission/SubmitFiles.kt

@@ -32,14 +32,14 @@ object SubmitFiles {
         fun getRevisedMetadataFile(accessions: List<Accession>): MockMultipartFile {
             val fileContent = getFileContent(REVISED_METADATA_FILE_NAME)
 
-            val lines = fileContent.trim().split("\n")
+            val lines = fileContent.trim().split("\n").toMutableList()
             val headerLine = lines.removeFirst()
 
             val revisedLines = lines
                 .map { it.substringAfter('\t') }
                 .zip(accessions)
                 .map { (line, accession) -> "$accession\t$line" }
-                .toList()
+                .toMutableList()
 
             revisedLines.addFirst(headerLine)