Changeset 6952

Timestamp:

Dec 9, 2022, 2:04:59 PM (2 months ago)

Author:

Nicklas Nordborg

Message:

Fixes #1430: Change default group permissions for archived JSON and FASTQ files

Location:

extensions/net.sf.basedb.reggie/branches/4.41-stable/src/net/sf/basedb/reggie

Files:

• grid/scripts/demux-utils.sh (modified) (1 diff)
• plugins/cmd/JsonFile.java (modified) (1 diff)

extensions/net.sf.basedb.reggie/branches/4.41-stable/src/net/sf/basedb/reggie/grid/scripts/demux-utils.sh

@@ -163 +163 @@
     # Copy from gatway to archive
     mkdir -p "${ImportArchive}"
-    # Temporary change umask to read-only for the current user
-    (umask u=r,g=,o= && cp "${ImportGateway}/${SRC}" "${ImportArchive}/${SRC}")
+    # Temporary change umask to read-only for the current user/group
+    (umask u=r,g=r,o= && cp "${ImportGateway}/${SRC}" "${ImportArchive}/${SRC}")
     if [ ! "${KeepFASTQOnGateway}" ]; then
       rm -f "${ImportGateway}/${SRC}"

extensions/net.sf.basedb.reggie/branches/4.41-stable/src/net/sf/basedb/reggie/plugins/cmd/JsonFile.java

@@ -515 +515 @@
     {
       session.executeCmd("mkdir -p " + directory, 5).throwExceptionIfNonZeroExitStatus();
-      session.uploadFile(upload, path, new FilePermission(FilePermission.READ, FilePermission.NONE, FilePermission.NONE));
+      session.uploadFile(upload, path, new FilePermission(FilePermission.READ, FilePermission.READ, FilePermission.NONE));
     }
     catch (Exception ex)