The 'build' Ant targets all depend on 'compile'

Before building the .jar files, the .java files better be compiled...

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
ProgAcq: automatically switch off live mode during acquisition

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Get rid of ProgAcq's 'Save Individual' checkbox

If the user specifies a directory, we know already that she wants to save
the images...

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Avoid illegal array access

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Temp workaround: A file was forgotten

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Modified ProgAcq to better understand stacks

Also hid some of the dirt from the user -- there's probably quite a few
changes to be made yet; I'd like to eventually replace rows of strings
with a StepRow class or the like, to better describe the steps to be
taken. Also, there's probably some unsafe things going on that I'll need
to track down shortly, but pushing this out was a bit of an emergency.

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
Began implementing AcqRows to update ProgAcq

So now we can do fancier stuff like combat drift, et cetera. It's not
entirely tested yet, so be careful while using it! (The SPIM Ranges tab
definitely works; I tested the position list early, but not recently, so
it might not be functional. Careful with it!)

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
Do not try to overwrite bootstrapped Fiji

When Fiji is initialized with bin_Win32/bootstrap.sh, ImageJ.exe does not
exist -- intentionally.

Our startup script should therefore look for ImageJ-win32.exe as a
tell-tale whether the built Fiji should be copied or not.

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Make sure that 'ant' is found in the PATH

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Fix classpath for PixelCalibrator

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
start.sh: make sure that stderr is shown in the console

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Startup script: make sure jvisualvm is in the PATH

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
OME Tiff writing: support 8-bit images, too

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Show stacktraces when the programmatic acquisition fails

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Add a macro to prepare time-lapse files for SPIM Registration

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>
Merged start.sh

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
Removed old steps approach to AcqParams.

The old List<String[]> option no longer exists; we have to use AcqRow[]
now (it includes useful stuff for stacks and such.).

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
# This is a combination of 3 commits.
# The first commit's message is:
First implementation of anti-drift

See comment on issue 78(?) regarding my plan. There's some bugs with it --
possible exceptions during acquisition, I believe -- but I'll be working
them out.

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>

# The 2nd commit message will be skipped:

#	fixup! First implementation of anti-drift

# The 3rd commit message will be skipped:

#	fixup! First implementation of anti-drift
#
#	Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
Revisions to OMETIFFHandler

Almost supports things properly, now...

Signed-off-by: Luke Stuyvenberg <stuyvenberg@wisc.edu>
Rename Blubs: use a format closer to what SPIM Registration expects

Signed-off-by: Johannes Schindelin <johannes.schindelin@gmx.de>