lifs-tools / goslin-webapp Goto Github PK

This issue lists Renovate updates and detected dependencies. Read the Dependency Dashboard docs to learn more.

Rate-Limited

These updates are currently rate-limited. Click on a checkbox below to force their creation now.

• Update dependency maven to v3.9.9
• Update dependency org.apache.maven.plugins:maven-deploy-plugin to v3.1.3
• Update dependency org.apache.maven.plugins:maven-install-plugin to v3.1.3
• Update dependency org.jacoco:jacoco-maven-plugin to v0.8.12
• Update dependency org.lifs-tools:jgoslin-parsers to v2.2.1
• Update dependency org.lifs-tools:lifs-webapps-common to v1.1.6
• Update dependency com.google.cloud.tools:jib-maven-plugin to v3.4.3
• Update dependency maven-wrapper to v3.3.2
• Update dependency org.apache.maven.plugins:maven-compiler-plugin to v3.13.0
• Update dependency org.apache.maven.plugins:maven-jar-plugin to v3.4.2
• Update dependency org.apache.maven.plugins:maven-javadoc-plugin to v3.10.0
• Update dependency org.apache.maven.plugins:maven-surefire-plugin to v3.5.0
• Update jackson monorepo to v2.17.2 (com.fasterxml.jackson.core:jackson-databind, com.fasterxml.jackson.dataformat:jackson-dataformat-csv)
• Update actions/checkout action to v4
• Update actions/setup-java action to v4
• Update dependency org.keycloak:keycloak-spring-boot-starter to v25
• Update dependency org.owasp:dependency-check-maven to v10
• Update docker/login-action action to v3
• Update whelk-io/maven-settings-xml-action action to v22
• 🔐 Create all rate-limited PRs at once 🔐

Open

These updates have all been created already. Click a checkbox below to force a retry/rebase of any.

• Update dependency com.google.guava:guava to v32 [SECURITY]
• Update spring boot to v2.7.18 (org.springframework.boot:spring-boot-maven-plugin, org.springframework.boot:spring-boot-starter-test)
• Update dependency org.apache.maven.plugins:maven-assembly-plugin to v3.7.1
• Update dependency org.apache.maven.plugins:maven-dependency-plugin to v3.8.0
• Update dependency org.apache.maven.plugins:maven-shade-plugin to v3.6.0
• Update dependency org.apache.maven.plugins:maven-source-plugin to v3.3.1
• Update dependency org.codehaus.mojo:buildnumber-maven-plugin to v3.2.1
• Update dependency org.owasp:dependency-check-maven to v8.4.3
• Update jackson.version to v2.17.2 (com.fasterxml.jackson.datatype:jackson-datatype-joda, com.fasterxml.jackson.core:jackson-annotations, com.fasterxml.jackson.core:jackson-core)
• Update spring boot to v3 (major) (org.springframework.boot:spring-boot-maven-plugin, org.springframework.boot:spring-boot-starter-test)
• Click on this checkbox to rebase all open PRs at once

Detected dependencies

• Check this box to trigger a request for Renovate to run again on this repository

Hi,
First congratulations on the Goslin tool, great idea and very useful! I have tried some of the individual name examples you provide and noticed LCB 17:1;2 classified as Structural Subspecies with link to LIPIDMAPS but the LIPIDMAPS link actually provides an Isomeric Subspecies which provides link to SwissLipids. So, why did Goslin pick up LIPIDMAPS isomeric subspecies?
I also noticed that Palmitic acid is mapped to LIPIDMAPS but not SwissLipids, at first I thought it was due to protonation, but other lipids disregard charge and map to both resources, like 12-HETE, so maybe a bug there?
Will keep checking out your tool, it is a great initiative! Best,
Lucila

tetranor-12-HETE

When uploading a file with a least one lipid that cannot be parsed, the pages turns into first page without any information of failure.

In cases like ST 27:1;O / Cholesterol, quite a number of hits returned from LIPID MAPS have no common name, e.g.:
https://www.lipidmaps.org/data/LMSDRecord.php?LMID=LMST01010081
Goslin Web should then fall back to display the systematic name instead.