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Triying to fix mac error with Rscript path #69

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Merged
pabloati merged 1 commit into from
Jun 23, 2026
Merged

Triying to fix mac error with Rscript path #69

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5 changes: 3 additions & 2 deletions src/main/java/tappas/DataApp.java
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Original file line number Diff line number Diff line change
Expand Up @@ -202,7 +202,8 @@ public enum FeatureTypeDiversity { Transcripts, Proteins};
public static final String RESULTS_GENE_PROT = "result_gene_prot.tsv";

// class data
private final String appRunPath = System.getProperty("user.dir");
//private final String appRunPath = System.getProperty("user.dir");
private final String appRunPath = Paths.get(System.getProperty("user.home"), ".tappas").toString();
Comment on lines +205 to +206
private String appBaseFolder;
private String appProjectsBaseFolder;
private String appFolder = "";
Expand All @@ -216,7 +217,7 @@ public void loadRscriptPath() {
try {
if(Files.exists(Paths.get(getRScriptOverwriteFilepath()))) {
List<String> lines = Files.readAllLines(Paths.get(getRScriptOverwriteFilepath()), StandardCharsets.UTF_8);
String rscriptPath = "";
//String rscriptPath = "";
if(lines != null && lines.size() == 1) {
// get full path from user defined entry
// deal with windows and spaces in name, e.g. "Program Files"
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