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** Changed in: imagej (Ubuntu)
       Status: Confirmed => Fix Released

** Also affects: imagej (Ubuntu Zesty)
   Importance: Medium
       Status: Fix Released

** Also affects: imagej (Ubuntu Yakkety)
   Importance: Undecided
       Status: New

** Also affects: imagej (Ubuntu Xenial)
   Importance: Undecided
       Status: New

** Summary changed:

- JAVA_HOME auto-detection fails due to whitespace in update-java-alternatives output
+ [SRU] JAVA_HOME auto-detection fails due to whitespace in update-java-alternatives output

** Changed in: imagej (Ubuntu Yakkety)
       Status: New => Fix Committed

** Changed in: imagej (Ubuntu Xenial)
       Status: New => Fix Committed

** Changed in: imagej (Ubuntu Yakkety)
       Status: Fix Committed => Fix Released

** Description changed:

+ [Impact]
+ 
+  * running imagej with auto detected JAVA_HOME fails
+ 
+ [Test Case]
+ 
+  * run it
+ 
+ [Regression Potential]
+ 
+  * none, this is a bug because update-java-alternatives has a whitespace
+ in its output, and parsing fails
+ 
+ [Other Info]
+  
  Running imagej fails with the following message:
  
-    Open other images in this ImageJ panel as follows:
-      imagej -p 3 <image1> [<image2> ... <imageN>]
+    Open other images in this ImageJ panel as follows:
+      imagej -p 3 <image1> [<image2> ... <imageN>]
  
-    No JVM found to run ImageJ
-    Please apt-get install a JVM to run ImageJ or 
-    set JAVA_HOME if it's not a JVM from a Debian Package.
+    No JVM found to run ImageJ
+    Please apt-get install a JVM to run ImageJ or
+    set JAVA_HOME if it's not a JVM from a Debian Package.
  
  even though multiple JVM's are installed here.
  
  The problem is that the /usr/bin/imagej script detects JAVA_HOME using
  
-    JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
+    JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
  sort | tail -1 | cut -d' ' -f 3)
  
  which is empty as the output of update-java-alternatives -l is (note
  multiple spaces between columns):
  
  java-1.6.0-openjdk-amd64       1061       /usr/lib/jvm/java-1.6.0-openjdk-amd64
  java-1.7.0-openjdk-amd64       1071       /usr/lib/jvm/java-1.7.0-openjdk-amd64
  java-1.8.0-openjdk-amd64       1081       /usr/lib/jvm/java-1.8.0-openjdk-amd64
  
  and cut -d' ' -f3 selects space. The solution is to squeeze multiple
  spaces before running cut, so the line should read:
  
-    JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
+    JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
  sort | tail -1 | tr -s ' ' | cut -d' ' -f 3)
  
  which then gives the correct output (/usr/lib/jvm/java-1.8.0-openjdk-
  amd64 in my case) and makes imagej run as expected.
  
  ProblemType: Bug
  DistroRelease: Ubuntu 16.04
  Package: imagej 1.50d+dfsg-1
  ProcVersionSignature: Ubuntu 3.19.0-49.55-lowlatency 3.19.8-ckt12
  Uname: Linux 3.19.0-49-lowlatency x86_64
  NonfreeKernelModules: btrfs ufs qnx4 hfsplus hfs minix ntfs msdos jfs xfs libcrc32c pci_stub binfmt_misc cfg80211 joydev hid_logitech_hidpp snd_hda_codec_hdmi snd_hda_intel snd_hda_controller eeepc_wmi asus_wmi sparse_keymap snd_hda_codec x86_pkg_temp_thermal intel_powerclamp video snd_hwdep snd_pcm snd_seq_midi kvm_intel snd_seq_midi_event kvm snd_rawmidi crct10dif_pclmul snd_seq crc32_pclmul snd_seq_device snd_timer snd aesni_intel sb_edac aes_x86_64 lrw soundcore gf128mul glue_helper edac_core ablk_helper serio_raw mei_me cryptd mei lpc_ich tpm_infineon 8250_fintek shpchp mac_hid nct6775 hwmon_vid coretemp parport_pc ppdev nfsd lp auth_rpcgss nfs_acl lockd grace sunrpc parport autofs4 raid10 raid456 async_raid6_recov async_memcpy async_pq async_xor async_tx xor raid6_pq raid0 multipath linear hid_logitech_dj usbhid hid raid1 amdkfd amd_iommu_v2 mxm_wmi radeon igb ttm drm_kms_helper dca psmouse ptp drm ahci pps_core libahci i2c_algo_bit wmi
  ApportVersion: 2.20-0ubuntu3
  Architecture: amd64
  CurrentDesktop: XFCE
  Date: Mon Mar 14 15:56:23 2016
  PackageArchitecture: all
  SourcePackage: imagej
  UpgradeStatus: Upgraded to xenial on 2012-03-12 (1463 days ago)

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https://bugs.launchpad.net/bugs/1556997

Title:
  [SRU] JAVA_HOME auto-detection fails due to whitespace in update-java-
  alternatives output

Status in One Hundred Papercuts:
  Confirmed
Status in imagej package in Ubuntu:
  Fix Released
Status in imagej source package in Xenial:
  Fix Committed
Status in imagej source package in Yakkety:
  Fix Released
Status in imagej source package in Zesty:
  Fix Released
Status in imagej package in Debian:
  Fix Released

Bug description:
  [Impact]

   * running imagej with auto detected JAVA_HOME fails

  [Test Case]

   * run it

  [Regression Potential]

   * none, this is a bug because update-java-alternatives has a
  whitespace in its output, and parsing fails

  [Other Info]
   
  Running imagej fails with the following message:

     Open other images in this ImageJ panel as follows:
       imagej -p 3 <image1> [<image2> ... <imageN>]

     No JVM found to run ImageJ
     Please apt-get install a JVM to run ImageJ or
     set JAVA_HOME if it's not a JVM from a Debian Package.

  even though multiple JVM's are installed here.

  The problem is that the /usr/bin/imagej script detects JAVA_HOME using

     JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
  sort | tail -1 | cut -d' ' -f 3)

  which is empty as the output of update-java-alternatives -l is (note
  multiple spaces between columns):

  java-1.6.0-openjdk-amd64       1061       /usr/lib/jvm/java-1.6.0-openjdk-amd64
  java-1.7.0-openjdk-amd64       1071       /usr/lib/jvm/java-1.7.0-openjdk-amd64
  java-1.8.0-openjdk-amd64       1081       /usr/lib/jvm/java-1.8.0-openjdk-amd64

  and cut -d' ' -f3 selects space. The solution is to squeeze multiple
  spaces before running cut, so the line should read:

     JAVA_HOME=$(/usr/sbin/update-java-alternatives -l | grep openjdk |
  sort | tail -1 | tr -s ' ' | cut -d' ' -f 3)

  which then gives the correct output (/usr/lib/jvm/java-1.8.0-openjdk-
  amd64 in my case) and makes imagej run as expected.

  ProblemType: Bug
  DistroRelease: Ubuntu 16.04
  Package: imagej 1.50d+dfsg-1
  ProcVersionSignature: Ubuntu 3.19.0-49.55-lowlatency 3.19.8-ckt12
  Uname: Linux 3.19.0-49-lowlatency x86_64
  NonfreeKernelModules: btrfs ufs qnx4 hfsplus hfs minix ntfs msdos jfs xfs libcrc32c pci_stub binfmt_misc cfg80211 joydev hid_logitech_hidpp snd_hda_codec_hdmi snd_hda_intel snd_hda_controller eeepc_wmi asus_wmi sparse_keymap snd_hda_codec x86_pkg_temp_thermal intel_powerclamp video snd_hwdep snd_pcm snd_seq_midi kvm_intel snd_seq_midi_event kvm snd_rawmidi crct10dif_pclmul snd_seq crc32_pclmul snd_seq_device snd_timer snd aesni_intel sb_edac aes_x86_64 lrw soundcore gf128mul glue_helper edac_core ablk_helper serio_raw mei_me cryptd mei lpc_ich tpm_infineon 8250_fintek shpchp mac_hid nct6775 hwmon_vid coretemp parport_pc ppdev nfsd lp auth_rpcgss nfs_acl lockd grace sunrpc parport autofs4 raid10 raid456 async_raid6_recov async_memcpy async_pq async_xor async_tx xor raid6_pq raid0 multipath linear hid_logitech_dj usbhid hid raid1 amdkfd amd_iommu_v2 mxm_wmi radeon igb ttm drm_kms_helper dca psmouse ptp drm ahci pps_core libahci i2c_algo_bit wmi
  ApportVersion: 2.20-0ubuntu3
  Architecture: amd64
  CurrentDesktop: XFCE
  Date: Mon Mar 14 15:56:23 2016
  PackageArchitecture: all
  SourcePackage: imagej
  UpgradeStatus: Upgraded to xenial on 2012-03-12 (1463 days ago)

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