CLI: Fix CustomFilesCommandExecutor upload problems #4843

opencb · Aug 11, 2023 · 7b0a294 · 7b0a294
1 parent 41b33a1
commit 7b0a294
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Showing 2 changed files with 3 additions and 2 deletions.
diff --git a/...-app/src/main/java/org/opencb/opencga/app/cli/main/custom/CustomFilesCommandExecutor.java b/...-app/src/main/java/org/opencb/opencga/app/cli/main/custom/CustomFilesCommandExecutor.java
@@ -38,8 +38,8 @@ public CustomFilesCommandExecutor(ObjectMap options, String token, ClientConfigu
 
     public RestResponse<File> upload() throws Exception {
 //        ObjectMap params = new ObjectMap()
-        options.append("fileFormat", ParamUtils.defaultString(String.valueOf(options.get("fileFormat")), File.Format.UNKNOWN.toString()))
-                .append("bioformat", ParamUtils.defaultString(String.valueOf(options.get("bioformat")), File.Bioformat.UNKNOWN.toString()));
+        options.append("fileFormat", options.getString("fileFormat", File.Format.UNKNOWN.toString()))
+                .append("bioformat", options.getString("bioformat", File.Bioformat.UNKNOWN.toString()));
 //        //If the DEPRECATED parameter fileFormat has set we only override it if the new parameter format is also set
 //        params.append("fileFormat", ParamUtils.defaultString(commandOptions.format, params.getString("fileFormat")));
 //        params.putIfNotEmpty("study", commandOptions.study);

diff --git a/opencga-client/src/main/java/org/opencb/opencga/client/rest/AbstractParentClient.java b/opencga-client/src/main/java/org/opencb/opencga/client/rest/AbstractParentClient.java
@@ -456,6 +456,7 @@ protected <T> RestResponse<T> callUploadRest(WebTarget path, Map<String, Object>
          client.property(ClientProperties.READ_TIMEOUT, DEFAULT_UPLOAD_TIMEOUT);
          path.register(MultiPartFeature.class);
          path.property(ClientProperties.REQUEST_ENTITY_PROCESSING, RequestEntityProcessing.CHUNKED);
+
          final FileDataBodyPart filePart = new FileDataBodyPart("file", new File(filePath));
          FormDataMultiPart formDataMultiPart = new FormDataMultiPart();
          // Add the rest of the parameters to the form