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THANKS
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THANKS
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Big thanks to
Sandor Suhai, Karl-Heinz Glatting and Frieder Kern from the german cancer
research centre (DKFZ Heidelberg) who made the release of MIRA as Open Source
possible. Thomas Pfisterer who agreed to also release his EdIt package to Open
Source.
Jose Blanca wrote the initial sff_extract script to extract and pre-process
data from SFFs.
People who wrote scripts for MIRA and made alowed me to make them publicly
available as 3rd party scripts: Jacqueline Weber-Lehmann, Stephen Taylor, Ross
Whettten, Gregory Harhay
Furthermore, I would like to thank
Bernd Drescher for support, talks and tests of the earliest MIRA. He
actually intiated this project at the DKFZ.
Matthias Platzert testing out the earliest versions of MIRA
Gerald Nyakatura testing out the earliest versions of MIRA
James Bonfield for helpful tips on how to make MIRA output compatible to
the Staden gap4 program.
Norman Warthmann suggesting features for miraEST
Paul Bickerstaff for pushing early miraEST to the limits and actually
sending me the first MIRA postcard ever :-)
Alexander Kuehn helping out with HP Testdrive to get MIRA compiled there
Randolf Schulz finding the Apple linker error and (a solution to it) that
prevented compiling MIRA on Darwin / MacOS X
Jacqueline Weber for helping in finding out about the 454 adapter
sequences and thoroughly testing the 454 assemblies
Gerrit Schramm from Roche in helping me out to understand some of the less
well known things regarding the 454 sequencing system
Hernández Alvarez
Alfredo José providing patches to have MIRA compile again on Solaris
Lionel Guy implementing bug fixes in sff_extract and making available
data sets to hunt down some ugly bugs in MIRA
Sven Klages for insightful feedback and providing a fix for the ACE
file format of tags
Steven Cozza Helping to iron out problems in the build process on
OpenSolaris
Heng Li For having made available to everyone interested routines
to load FASTQ.
Thomas Vaughan For an explanation on how to compile on NetBSD 5 (i386)
Liam Elbourne For finding out the cause which prevented MIRA to link
and correctly on Mac OSX systems (the linker prefers system
Peter Stockwell libraries over specific libraries)
David P. Judge being the first to actually fix a dumb bug of mine in MIRA
Bob Bruccoleri finding and sending fixes for problems in the configure
build process as well as other patches, suggestions and
test cases
Jorge Duarte from BIOGEMMA for making available test sets to track down
memory corruption bugs
Dag Ahren making available a test set to track down a rather nasty
problem occuring during clipping
Jan van Haarst Running benchmarks over NFS to find poorly performing
input/output routines
Peter Cock Invaluable feedback for implementing SAM format and
pointing out bugs, small and large
Debian Med team For patches and packaging MIRA so that it is available for
Debian and all distributions based on Debian.
... and numerous people on the mira_talk mailing list who reported successes,
bugs and/or quirks either in the build process or while running mira.
My warmest thanks to Bob Bruccoleri, Lionel Guy, Arun Rawat, Nestor Zaburannyi
and numerous other people who either declined being thanked publicly or could
not respond before I wrote this (just drop me a mail). They all donated time
and computing power to hunt down a "bug" which turned out to be a RAM defect
on my development machine.