<div dir="ltr">Hi all,<div><br></div><div style>Looks like I spoke too soon about everything being fine with my OMERO Linux dev install. Seems like the web client is receiving 404s for many static resources [1]. Any ideas?</div>
<div style><br></div><div style>Thanks,</div><div style>Curtis</div><div style><br></div><div style>[1] <a href="http://curtis.imagej.net/omero-web-404s.png">http://curtis.imagej.net/omero-web-404s.png</a></div></div><div class="gmail_extra">
<br><br><div class="gmail_quote">On Mon, Mar 25, 2013 at 3:11 PM, Curtis Rueden <span dir="ltr"><<a href="mailto:ctrueden@wisc.edu" target="_blank">ctrueden@wisc.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr">Hi everyone,<div><br></div><div>I recently set up an OMERO developer installation (i.e.., from openmicroscopy.git), and thought I would pass along some notes, comments and suggestions relating to my experiences. Perhaps it is useful to help refine the documentation.</div>
<div><br></div><div><div>First I tried setting up OMERO on an OS X workstation using Homebrew by following the walkthrough guide [1]. Unfortunately, I ran into quite a bit of trouble [3].</div><div><br></div><div>
Ultimately, I gave up and decided to install into an Ubuntu Linux VM instead according to the Linux walkthrough guide [2], which I now have working [4]. The directions in the Linux walkthrough worked. Some brief comments there:</div>
<div><br></div><div>1) Version numbers are out of date for Ubuntu 12.04, of course.</div><div><br></div><div>2) python-tables installed OK (I think), so I skipped the liblzo2-2 install.</div><div><br></div><div>3) I used openjdk-7-jdk instead of building a sun-java6-jdk as shown in the instructions, and OMERO seems to run fine (so far).</div>
<div><div><br></div><div>Note that the OS X Homebrew guide has a small "Developer server" section, but the corresponding Linux walkthrough guide has no such section.</div><div><br></div><div>In general, I did not know which guide to follow for a developer installation from source, rather than one from a downloaded tarball. Would it make sense to have a separate, dedicated page for that, which links to the other guides as appropriate (for prereqs etc.) but which also explains the differences when building and running from source?</div>
</div><div><br></div></div><div><div>Regards,<br></div></div><div>Curtis</div><div><br></div><div>[1] <a href="https://www.openmicroscopy.org/site/support/omero4/sysadmins/unix/server-install-homebrew.html" target="_blank">https://www.openmicroscopy.org/site/support/omero4/sysadmins/unix/server-install-homebrew.html</a></div>
<div><br></div><div>[2] <a href="https://www.openmicroscopy.org/site/support/omero4/sysadmins/unix/server-install-linux.html" target="_blank">https://www.openmicroscopy.org/site/support/omero4/sysadmins/unix/server-install-linux.html</a></div>
<div><br></div><div>[3] Selected logs from OS X Homebrew installation attempt:</div><div><br></div><div>$ sw_vers</div><div>ProductName:<span style="white-space:pre-wrap"> </span>Mac OS X</div><div>ProductVersion:<span style="white-space:pre-wrap"> </span>10.6.8</div>
<div>BuildVersion:<span style="white-space:pre-wrap"> </span>10K549</div><div><br></div><div>$ brew --config</div><div>HOMEBREW_VERSION: 0.9.4</div><div>ORIGIN: <a href="https://github.com/mxcl/homebrew.git" target="_blank">https://github.com/mxcl/homebrew.git</a></div>
<div>HEAD: 35633640f3f322667ac067c73ab0b4c84022710c</div><div>HOMEBREW_PREFIX: /Users/curtis/brew</div><div>HOMEBREW_CELLAR: /Users/curtis/brew/Cellar</div><div>CPU: dual-core 64-bit penryn</div><div>OS X: 10.6.8-i386</div>
<div>Xcode: 3.2.6</div><div>GCC-4.0: build 5494</div><div>GCC-4.2: build 5666</div><div>LLVM-GCC: build 2335</div><div>Clang: 1.7 build 77</div><div>X11: 2.3.6 => /usr/X11</div><div>System Ruby: 1.8.7-358</div><div>Perl: /usr/bin/perl</div>
<div>Python: /Users/curtis/brew/bin/python => /Users/curtis/brew/Cellar/python/2.7.3/Frameworks/Python.framework/Versions/2.7/bin/python2.7</div><div>Ruby: /usr/bin/ruby => /System/Library/Frameworks/Ruby.framework/Versions/1.8/usr/bin/ruby</div>
<div><br></div><div>$ brew install postgresql</div><div>==> Downloading <a href="http://ftp.postgresql.org/pub/source/v9.2.3/postgresql-9.2.3.tar" target="_blank">http://ftp.postgresql.org/pub/source/v9.2.3/postgresql-9.2.3.tar</a></div>
<div>######################################################################## 100.0%</div><div>==> Patching</div><div>patching file src/pl/plpython/Makefile</div><div>patching file contrib/uuid-ossp/uuid-ossp.c</div><div>
Warning: Detected a framework Python that does not have 64-bit support in:</div><div>/Library/Frameworks/Python.framework/Versions/Current/Python</div><div><br></div><div>e configure script seems to prefer this version of Python over any others,</div>
<div> you may experience linker problems as described in:</div><div><a href="http://osdir.com/ml/pgsql-general/2009-09/msg00160.html" target="_blank">http://osdir.com/ml/pgsql-general/2009-09/msg00160.html</a></div><div>
<br></div><div> fix this issue, you may need to either delete the version of Python</div>
<div>own above, or move it out of the way before brewing PostgreSQL.</div><div><br></div><div>te that a framework Python in /Library/Frameworks/Python.framework is</div><div>e "MacPython" version, and not the system-provided version which is in:</div>
<div>/System/Library/Frameworks/Python.framework</div><div>==> ./configure --prefix=/Users/curtis/brew/Cellar/postgresql/9.2.3 --datadir=/U</div><div>==> make install-world</div><div>/bin/sh ../../config/install-sh -c -d '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension'</div>
<div>/bin/sh ../../config/install-sh -c -m 755 adminpack.so '/Users/curtis/brew/Cellar/postgresql/9.2.3/lib/adminpack.so'</div><div>/bin/sh ../../config/install-sh -c -m 644 ./adminpack.control '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension/'</div>
<div>/bin/sh ../../config/install-sh -c -m 644 ./adminpack--1.0.sql '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension/'</div><div>make: *** [install-world-contrib-recurse] Error 2</div><div>
<br>
</div><div>$ sudo mv /Library/Frameworks/Python.framework /Library/Frameworks/pfx</div><div><br></div><div>$ brew install postgresql</div><div>==> Downloading <a href="http://ftp.postgresql.org/pub/source/v9.2.3/postgresql-9.2.3.tar" target="_blank">http://ftp.postgresql.org/pub/source/v9.2.3/postgresql-9.2.3.tar</a></div>
<div>Already downloaded: /Users/curtis/Library/Caches/Homebrew/postgresql-9.2.3.tar.bz2</div><div>==> Patching</div><div>patching file src/pl/plpython/Makefile</div><div>patching file contrib/uuid-ossp/uuid-ossp.c</div>
<div>==> ./configure --prefix=/Users/curtis/brew/Cellar/postgresql/9.2.3 --datadir=/U</div><div>==> make install-world</div><div>/bin/sh ../../config/install-sh -c -m 755 adminpack.so '/Users/curtis/brew/Cellar/postgresql/9.2.3/lib/adminpack.so'</div>
<div>/bin/sh ../../config/install-sh -c -d '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension'</div><div>/bin/sh ../../config/install-sh -c -m 644 ./adminpack.control '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension/'</div>
<div>/bin/sh ../../config/install-sh -c -m 644 ./adminpack--1.0.sql '/Users/curtis/brew/Cellar/postgresql/9.2.3/share/postgresql/extension/'</div><div>make: *** [install-world-contrib-recurse] Error 2</div><div>
<br>
</div><div>$ sudo mv /Library/Frameworks/pfx /Library/Frameworks/Python.framework</div><div><br></div><div>$ brew doctor</div><div>Warning: Your Homebrew is not installed to /usr/local</div><div>You can install Homebrew anywhere you want, but some brews may only build</div>
<div>correctly if you install in /usr/local. Sorry!</div><div><br></div><div>(Note: the logs above do not include another failure I had when installing berkeley-db46.)</div><div><br></div><div>[4] Selected logs from OMERO Linux installation:</div>
<div><br></div><div><div>$ omero config get <a href="http://omero.db.name" target="_blank">omero.db.name</a></div><div>********************************************************************************</div><div><br></div>
<div>
ERROR: Could not import omero.cli! (No module named omero.cli)</div><div><br></div><div> This means that your installation is incomplete. Contact</div><div> the OME mailing lists for more information:</div>
<div><br></div><div> <a href="http://www.openmicroscopy.org/site/community" target="_blank">http://www.openmicroscopy.org/site/community</a></div><div><br></div><div> If you are building from source, please supply the build log</div>
<div> as well as which version you are building from. If you</div><div> downloaded a distribution, please provide which link you</div><div> used.</div><div> </div><div>********************************************************************************</div>
<div><br></div><div> Debugging Info:</div><div> --------------</div><div> CWD=/home/curtis/code/ome/openmicroscopy</div><div> VERSION=2.7.3 (default, Aug 1 2012, 05:14:39) [GCC 4.6.3]</div><div>
OMERO_HOME=/home/curtis/code/ome/openmicroscopy</div><div> PYTHONPATH=['/home/curtis/code/ome/openmicroscopy/lib/python', '/home/curtis/code/ome/openmicroscopy/var/lib', '/home/curtis/code/ome/openmicroscopy/dist/bin', '/usr/lib/pymodules/python2.7', '/home/curtis/code/ome/openmicroscopy', '/usr/lib/python2.7', '/usr/lib/python2.7/plat-linux2', '/usr/lib/python2.7/lib-tk', '/usr/lib/python2.7/lib-old', '/usr/lib/python2.7/lib-dynload', '/usr/local/lib/python2.7/dist-packages', '/usr/lib/python2.7/dist-packages', '/usr/lib/python2.7/dist-packages/PIL', '/usr/lib/python2.7/dist-packages/gst-0.10', '/usr/lib/python2.7/dist-packages/gtk-2.0', '/usr/lib/python2.7/dist-packages/ubuntu-sso-client', '/usr/lib/python2.7/dist-packages/ubuntuone-client', '/usr/lib/python2.7/dist-packages/ubuntuone-control-panel', '/usr/lib/python2.7/dist-packages/ubuntuone-couch', '/usr/lib/python2.7/dist-packages/ubuntuone-installer', '/usr/lib/python2.7/dist-packages/ubuntuone-storage-protocol', '/home/curtis/code/ome/openmicroscopy/lib/fallback']</div>
<div><br></div><div>To fix, I needed to set OMERO_HOME to "openmicroscopy/dist" subfolder, so it could find the Python libs in lib.</div><div><br></div><div>It would be good to add this as a note to both of the walkthrough guides, in the "Developer server" section.</div>
<div><br></div></div></div>
</blockquote></div><br></div>