From 1a971ea6ddce17339fae9aaad8fdb481e3f25123 Mon Sep 17 00:00:00 2001 From: doncheva Date: Wed, 29 May 2024 17:09:17 +0200 Subject: [PATCH] Fixed a bug causing errors when sending networks from STRING to Cytoscape for some species. --- pom.xml | 2 +- .../internal/tasks/ProteinQueryTask.java | 4 +++- stringApp-2.1.0.jar => stringApp-2.1.1.jar | Bin 2705626 -> 2705626 bytes 3 files changed, 4 insertions(+), 2 deletions(-) rename stringApp-2.1.0.jar => stringApp-2.1.1.jar (99%) diff --git a/pom.xml b/pom.xml index 2858d97b..a014eb8a 100644 --- a/pom.xml +++ b/pom.xml @@ -18,7 +18,7 @@ bundle ${bundle.symbolicName} - 2.1.0 + 2.1.1 diff --git a/src/main/java/edu/ucsf/rbvi/stringApp/internal/tasks/ProteinQueryTask.java b/src/main/java/edu/ucsf/rbvi/stringApp/internal/tasks/ProteinQueryTask.java index 52545ac9..d918c466 100644 --- a/src/main/java/edu/ucsf/rbvi/stringApp/internal/tasks/ProteinQueryTask.java +++ b/src/main/java/edu/ucsf/rbvi/stringApp/internal/tasks/ProteinQueryTask.java @@ -120,7 +120,9 @@ public ProteinQueryTask(final StringManager manager) { public void run(TaskMonitor monitor) { monitor.setTitle("STRING Protein Query"); Species sp = Species.getSpecies(species); - if (taxonID != -1 && !sp.isCustom()) { + // if (taxonID != -1 && sp != null && !sp.isCustom()) { + // Fallback to species taxonID if species name was not enough to find our species + if (sp == null && taxonID != -1) { for (Species s : speciesList) { if (s.getTaxId() == taxonID) { if (!s.toString().equals(species)) { diff --git a/stringApp-2.1.0.jar b/stringApp-2.1.1.jar similarity index 99% rename from stringApp-2.1.0.jar rename to stringApp-2.1.1.jar index f0402307e321297be863a06a3229e88fb993c7da..bcd3e26d9efb075e7f595c4b8dbddbc3371cf3d4 100644 GIT binary patch delta 7945 zcmZ9RbyQU0xA*Ck4q@mn>6C_np$4Q=K)M?NsR2ppk{P-|LO?pCyGum6TS6JSE^_a> zzxTdptzdth3hsWA5$udF`~@c6%64!q|3y}Gh&x*A0Lk`K3Iz-3*f zpB$_pQfxldgTB-IQPc?}LA@)>XyXMM^`wh@5Bjo2Hxj8HML&kTCWn{ 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