Fixed segmentation fault with objects file present and no edges in a filtered graph.

Author: agudys

.github/workflows/self-hosted.yml

@@ -52,6 +52,8 @@ jobs:
     runs-on: [self-hosted, clusty, '${{ matrix.machine }}']
 
     steps:
+    - name: list files
+      run: ls -lR
     - name: make
       run: gmake -j32 CXX=g++-${{matrix.compiler}} CC=gcc-${{matrix.compiler}} PLATFORM=${{ matrix.platform }} LEIDEN=true STATIC_LINK=true
     - name: copy executable    

README.md

@@ -263,6 +263,6 @@ In the following section one can find detailed information on clustering algorit
 
 
 ## Citation
-Zielezinski A, Gudyś A, Barylski J, Siminski K, Rozwalak P, Dutilh BE, Deorowicz S. Ultrafast and accurate sequence alignment and clustering of viral genomes. bioRxiv [doi:10.1101/2024.06.27.601020].
+Zielezinski A, Gudyś A, Barylski J, Siminski K, Rozwalak P, Dutilh BE, Deorowicz S. Ultrafast and accurate sequence alignment and clustering of viral genomes. Nat Methods. [https://doi.org/10.1038/s41592-025-02701-7](https://doi.org/10.1038/s41592-025-02701-7)
 
 ###

src/graph.cpp

@@ -23,6 +23,10 @@ void Graph::sortClustersBySize(
 	const std::vector<int>& assignments,
 	std::vector<int>& old2new) const {
 
+	if (assignments.empty()) {
+		return;
+	}
+
 	// get number of clusters
 	int n_clusters = *std::max_element(assignments.begin(), assignments.end()) + 1;
 

src/version.h

@@ -8,12 +8,15 @@
 //
 // *******************************************************************************************
 
-#define VERSION		"1.2.0"
-#define DATE		"2025-02-10"
+#define VERSION		"1.2.1"
+#define DATE		"2025-05-19"
 
 
 /********* Version history *********
 
+1.2.1 (2025-05-19)
+Fixed segmentation fault with objects file present and no edges in a filtered graph.
+
 1.2.0 (2025-02-10)
 * Different ordering of assignments in the output file (clusters decreasingly by size, elements within clusters decreasingly by representativeness).
 * Improved I/O performance.