#
# ChangeLog for /INSTALL 
# 
# Generated by Trac 0.10.4
# 11/24/09 04:29:54
#


08/21/09 16:52:11 cholt [244]
	* INSTALL (modified)
	* MPI/mpi_evaluator (modified)
	* MPI/mpi_maker (modified)
	* README (modified)
	* bin/maker (modified)
	* lib/GI.pm (modified)
	* lib/PhatHit_utils.pm (modified)
	* lib/Widget/fgenesh.pm (modified)
	* lib/Widget/genemark/gmhmm_wrap (modified)
	bug in repeat mask cause by prok upgrade

07/27/09 16:02:36 cholt [238]
	* INSTALL (modified)
	INSTALL update

07/07/09 15:18:54 cholt [227]
	* INSTALL (modified)
	* README (modified)
	* data/te_proteins.fasta (modified)
	fix documentation, fix te_proteins

04/28/09 15:01:45 cholt [209]
	* INSTALL (modified)
	* MPI/mpi_maker (modified)
	* README (modified)
	* lib/File/NFSLock.pm (modified)
	* lib/GI.pm (modified)
	* lib/ds_utility.pm (modified)
	* lib/runlog.pm (modified)
	lock file update

03/25/09 11:19:22 cholt [180]
	* INSTALL (modified)
	* README (modified)
	update documentation

03/25/09 10:37:38 cholt [174]
	* INSTALL (modified)
	* README (modified)
	* bin/maker (modified)
	* perl (added)
	* perl/DBD-SQLite-0.31 (added)
	* perl/DBD-SQLite-0.31/Changes (added)
	* perl/DBD-SQLite-0.31/MANIFEST (added)
	* perl/DBD-SQLite-0.31/MANIFEST.SKIP (added)
	* perl/DBD-SQLite-0.31/META.yml (added)
	* perl/DBD-SQLite-0.31/Makefile.PL (added)
	* perl/DBD-SQLite-0.31/README (added)
	* perl/DBD-SQLite-0.31/SQLite.xs (added)
	* perl/DBD-SQLite-0.31/SQLiteXS.h (added)
	* perl/DBD-SQLite-0.31/attach.c (added)
	* perl/DBD-SQLite-0.31/auth.c (added)
	* perl/DBD-SQLite-0.31/btree.c (added)
	* perl/DBD-SQLite-0.31/btree.h (added)
	* perl/DBD-SQLite-0.31/btree_rb.c (added)
	* perl/DBD-SQLite-0.31/build.c (added)
	* perl/DBD-SQLite-0.31/copy.c (added)
	* perl/DBD-SQLite-0.31/date.c (added)
	* perl/DBD-SQLite-0.31/dbdimp.c (added)
	* perl/DBD-SQLite-0.31/dbdimp.h (added)
	* perl/DBD-SQLite-0.31/delete.c (added)
	* perl/DBD-SQLite-0.31/encode.c (added)
	* perl/DBD-SQLite-0.31/expr.c (added)
	* perl/DBD-SQLite-0.31/func.c (added)
	* perl/DBD-SQLite-0.31/getsqlite.pl (added)
	* perl/DBD-SQLite-0.31/hash.c (added)
	* perl/DBD-SQLite-0.31/hash.h (added)
	* perl/DBD-SQLite-0.31/insert.c (added)
	* perl/DBD-SQLite-0.31/lib (added)
	* perl/DBD-SQLite-0.31/lib/DBD (added)
	* perl/DBD-SQLite-0.31/lib/DBD/SQLite.pm (added)
	* perl/DBD-SQLite-0.31/main.c (added)
	* perl/DBD-SQLite-0.31/opcodes.c (added)
	* perl/DBD-SQLite-0.31/opcodes.h (added)
	* perl/DBD-SQLite-0.31/os.c (added)
	* perl/DBD-SQLite-0.31/os.h (added)
	* perl/DBD-SQLite-0.31/pager.c (added)
	* perl/DBD-SQLite-0.31/pager.h (added)
	* perl/DBD-SQLite-0.31/parse.c (added)
	* perl/DBD-SQLite-0.31/parse.h (added)
	* perl/DBD-SQLite-0.31/pragma.c (added)
	* perl/DBD-SQLite-0.31/printf.c (added)
	* perl/DBD-SQLite-0.31/random.c (added)
	* perl/DBD-SQLite-0.31/select.c (added)
	* perl/DBD-SQLite-0.31/sqlite.h (added)
	* perl/DBD-SQLite-0.31/sqliteInt.h (added)
	* perl/DBD-SQLite-0.31/t (added)
	* perl/DBD-SQLite-0.31/t/00basic.t (added)
	* perl/DBD-SQLite-0.31/t/01logon.t (added)
	* perl/DBD-SQLite-0.31/t/02cr_table.t (added)
	* perl/DBD-SQLite-0.31/t/03insert.t (added)
	* perl/DBD-SQLite-0.31/t/04select.t (added)
	* perl/DBD-SQLite-0.31/t/05tran.t (added)
	* perl/DBD-SQLite-0.31/t/06error.t (added)
	* perl/DBD-SQLite-0.31/t/08create_function.t (added)
	* perl/DBD-SQLite-0.31/t/09create_aggregate.t (added)
	* perl/DBD-SQLite-0.31/t/10dsnlist.t (added)
	* perl/DBD-SQLite-0.31/t/20createdrop.t (added)
	* perl/DBD-SQLite-0.31/t/30insertfetch.t (added)
	* perl/DBD-SQLite-0.31/t/40bindparam.t (added)
	* perl/DBD-SQLite-0.31/t/40blobs.t (added)
	* perl/DBD-SQLite-0.31/t/40listfields.t (added)
	* perl/DBD-SQLite-0.31/t/40nulls.t (added)
	* perl/DBD-SQLite-0.31/t/40numrows.t (added)
	* perl/DBD-SQLite-0.31/t/50chopblanks.t (added)
	* perl/DBD-SQLite-0.31/t/50commit.t (added)
	* perl/DBD-SQLite-0.31/t/60metadata.t (added)
	* perl/DBD-SQLite-0.31/t/90cppcomments.t (added)
	* perl/DBD-SQLite-0.31/t/99cleanup.t (added)
	* perl/DBD-SQLite-0.31/t/SQLite.dbtest (added)
	* perl/DBD-SQLite-0.31/t/ak-dbd.t (added)
	* perl/DBD-SQLite-0.31/t/dbdadmin.t (added)
	* perl/DBD-SQLite-0.31/t/lib.pl (added)
	* perl/DBD-SQLite-0.31/table.c (added)
	* perl/DBD-SQLite-0.31/tokenize.c (added)
	* perl/DBD-SQLite-0.31/trigger.c (added)
	* perl/DBD-SQLite-0.31/update.c (added)
	* perl/DBD-SQLite-0.31/util.c (added)
	* perl/DBD-SQLite-0.31/vacuum.c (added)
	* perl/DBD-SQLite-0.31/vdbe.c (added)
	* perl/DBD-SQLite-0.31/vdbe.h (added)
	* perl/DBD-SQLite-0.31/vdbeInt.h (added)
	* perl/DBD-SQLite-0.31/vdbeaux.c (added)
	* perl/DBD-SQLite-0.31/where.c (added)
	* perl/DBI-1.607 (added)
	* perl/DBI-1.607/Changes (added)
	* perl/DBI-1.607/DBI.pm (added)
	* perl/DBI-1.607/DBI.xs (added)
	* perl/DBI-1.607/DBIXS.h (added)
	* perl/DBI-1.607/Driver.xst (added)
	* perl/DBI-1.607/Driver_xst.h (added)
	* perl/DBI-1.607/MANIFEST (added)
	* perl/DBI-1.607/META.yml (added)
	* perl/DBI-1.607/Makefile.PL (added)
	* perl/DBI-1.607/Perl.xs (added)
	* perl/DBI-1.607/README (added)
	* perl/DBI-1.607/Roadmap.pod (added)
	* perl/DBI-1.607/TASKS.pod (added)
	* perl/DBI-1.607/TODO_2005.txt (added)
	* perl/DBI-1.607/dbd_xsh.h (added)
	* perl/DBI-1.607/dbi_sql.h (added)
	* perl/DBI-1.607/dbilogstrip.PL (added)
	* perl/DBI-1.607/dbipport.h (added)
	* perl/DBI-1.607/dbiprof.PL (added)
	* perl/DBI-1.607/dbiproxy.PL (added)
	* perl/DBI-1.607/dbivport.h (added)
	* perl/DBI-1.607/dbixs_rev.h (added)
	* perl/DBI-1.607/dbixs_rev.pl (added)
	* perl/DBI-1.607/ex (added)
	* perl/DBI-1.607/ex/perl_dbi_nulls_test.pl (added)
	* perl/DBI-1.607/ex/profile.pl (added)
	* perl/DBI-1.607/lib (added)
	* perl/DBI-1.607/lib/Bundle (added)
	* perl/DBI-1.607/lib/Bundle/DBI.pm (added)
	* perl/DBI-1.607/lib/DBD (added)
	* perl/DBI-1.607/lib/DBD/DBM.pm (added)
	* perl/DBI-1.607/lib/DBD/ExampleP.pm (added)
	* perl/DBI-1.607/lib/DBD/File.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer (added)
	* perl/DBI-1.607/lib/DBD/Gofer.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Policy (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Policy/Base.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Policy/classic.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Policy/pedantic.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Policy/rush.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Transport (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Transport/Base.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Transport/null.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Transport/pipeone.pm (added)
	* perl/DBI-1.607/lib/DBD/Gofer/Transport/stream.pm (added)
	* perl/DBI-1.607/lib/DBD/NullP.pm (added)
	* perl/DBI-1.607/lib/DBD/Proxy.pm (added)
	* perl/DBI-1.607/lib/DBD/Sponge.pm (added)
	* perl/DBI-1.607/lib/DBI (added)
	* perl/DBI-1.607/lib/DBI/Const (added)
	* perl/DBI-1.607/lib/DBI/Const/GetInfo (added)
	* perl/DBI-1.607/lib/DBI/Const/GetInfo/ANSI.pm (added)
	* perl/DBI-1.607/lib/DBI/Const/GetInfo/ODBC.pm (added)
	* perl/DBI-1.607/lib/DBI/Const/GetInfoReturn.pm (added)
	* perl/DBI-1.607/lib/DBI/Const/GetInfoType.pm (added)
	* perl/DBI-1.607/lib/DBI/DBD (added)
	* perl/DBI-1.607/lib/DBI/DBD.pm (added)
	* perl/DBI-1.607/lib/DBI/DBD/Metadata.pm (added)
	* perl/DBI-1.607/lib/DBI/FAQ.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Execute.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Request.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Response.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Serializer (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Serializer/Base.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Serializer/DataDumper.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Serializer/Storable.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Transport (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Transport/Base.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Transport/pipeone.pm (added)
	* perl/DBI-1.607/lib/DBI/Gofer/Transport/stream.pm (added)
	* perl/DBI-1.607/lib/DBI/Profile.pm (added)
	* perl/DBI-1.607/lib/DBI/ProfileData.pm (added)
	* perl/DBI-1.607/lib/DBI/ProfileDumper (added)
	* perl/DBI-1.607/lib/DBI/ProfileDumper.pm (added)
	* perl/DBI-1.607/lib/DBI/ProfileDumper/Apache.pm (added)
	* perl/DBI-1.607/lib/DBI/ProfileSubs.pm (added)
	* perl/DBI-1.607/lib/DBI/ProxyServer.pm (added)
	* perl/DBI-1.607/lib/DBI/PurePerl.pm (added)
	* perl/DBI-1.607/lib/DBI/SQL (added)
	* perl/DBI-1.607/lib/DBI/SQL/Nano.pm (added)
	* perl/DBI-1.607/lib/DBI/Util (added)
	* perl/DBI-1.607/lib/DBI/Util/CacheMemory.pm (added)
	* perl/DBI-1.607/lib/DBI/Util/_accessor.pm (added)
	* perl/DBI-1.607/lib/DBI/W32ODBC.pm (added)
	* perl/DBI-1.607/lib/Win32 (added)
	* perl/DBI-1.607/lib/Win32/DBIODBC.pm (added)
	* perl/DBI-1.607/t (added)
	* perl/DBI-1.607/t/01basics.t (added)
	* perl/DBI-1.607/t/02dbidrv.t (added)
	* perl/DBI-1.607/t/03handle.t (added)
	* perl/DBI-1.607/t/04mods.t (added)
	* perl/DBI-1.607/t/05concathash.t (added)
	* perl/DBI-1.607/t/06attrs.t (added)
	* perl/DBI-1.607/t/07kids.t (added)
	* perl/DBI-1.607/t/08keeperr.t (added)
	* perl/DBI-1.607/t/09trace.t (added)
	* perl/DBI-1.607/t/10examp.t (added)
	* perl/DBI-1.607/t/11fetch.t (added)
	* perl/DBI-1.607/t/12quote.t (added)
	* perl/DBI-1.607/t/13taint.t (added)
	* perl/DBI-1.607/t/14utf8.t (added)
	* perl/DBI-1.607/t/15array.t (added)
	* perl/DBI-1.607/t/19fhtrace.t (added)
	* perl/DBI-1.607/t/20meta.t (added)
	* perl/DBI-1.607/t/30subclass.t (added)
	* perl/DBI-1.607/t/35thrclone.t (added)
	* perl/DBI-1.607/t/40profile.t (added)
	* perl/DBI-1.607/t/41prof_dump.t (added)
	* perl/DBI-1.607/t/42prof_data.t (added)
	* perl/DBI-1.607/t/43prof_env.t (added)
	* perl/DBI-1.607/t/50dbm.t (added)
	* perl/DBI-1.607/t/60preparse.t (added)
	* perl/DBI-1.607/t/65transact.t (added)
	* perl/DBI-1.607/t/70callbacks.t (added)
	* perl/DBI-1.607/t/72childhandles.t (added)
	* perl/DBI-1.607/t/80proxy.t (added)
	* perl/DBI-1.607/t/85gofer.t (added)
	* perl/DBI-1.607/t/86gofer_fail.t (added)
	* perl/DBI-1.607/t/87gofer_cache.t (added)
	* perl/DBI-1.607/t/pod-coverage.t (added)
	* perl/DBI-1.607/t/pod.t (added)
	* perl/DBI-1.607/test.pl (added)
	* perl/DBI-1.607/typemap (added)
	* perl/Install.PL (added)
	added DBI and DBD::SQLite

09/03/08 14:14:48 cholt [96]
	* INSTALL (modified)
	* MPI/MPIcar/MPIcar.bs (deleted)
	* MPI/MPIcar/Makefile.PL (modified)
	* MPI/MPIcar/mpi_maker (deleted)
	* MPI/MPIcar/pm_to_blib (deleted)
	* README (modified)
	documentation update

08/26/08 17:15:30 cholt [89]
	* Apollo (added)
	* Apollo/fly.tiers (added)
	* Apollo/gff3.tiers (added)
	* INSTALL (added)
	* MPI (added)
	* MPI/MANIFEST (added)
	* MPI/MANIFEST.SKIP (added)
	* MPI/MPIcar.pm (added)
	* MPI/MPIcar.xs (added)
	* MPI/Makefile.PL (added)
	* MPI/contrib (added)
	* MPI/contrib/cpi (added)
	* MPI/contrib/cpi/Makefile (added)
	* MPI/contrib/cpi/cpi.PL (added)
	* MPI/contrib/cpi/cpi.c (added)
	* MPI/contrib/heat (added)
	* MPI/contrib/heat/Makefile (added)
	* MPI/contrib/heat/heat_plate_mpi.PL (added)
	* MPI/contrib/heat/heat_plate_mpi.f (added)
	* MPI/contrib/perf (added)
	* MPI/contrib/perf/Makefile (added)
	* MPI/contrib/perf/mpi_timing.PL (added)
	* MPI/contrib/perf/mpi_timing.c (added)
	* MPI/contrib/perf/runtiming.pl (added)
	* MPI/docs (added)
	* MPI/docs/MPI-C-Bindings.txt (added)
	* MPI/docs/README (added)
	* MPI/docs/TODO (added)
	* MPI/docs/paper.tex (added)
	* MPI/mpi_maker (added)
	* MPI/t (added)
	* MPI/t/00_use_mpi.t (added)
	* MPI/t/01_mpi_init.PL (added)
	* MPI/t/01_mpi_init.t (added)
	* MPI/t/02_mpi_finalize.PL (added)
	* MPI/t/02_mpi_finalize.t (added)
	* MPI/t/03_mpi_comm_rank.PL (added)
	* MPI/t/03_mpi_comm_rank.t (added)
	* MPI/t/04_mpi_comm_size.PL (added)
	* MPI/t/04_mpi_comm_size.t (added)
	* MPI/t/05_mpi_initialized.PL (added)
	* MPI/t/05_mpi_initialized.t (added)
	* MPI/t/06_mpi_sendrecv.PL (added)
	* MPI/t/06_mpi_sendrecv.t (added)
	* MPI/t/06_sendrecv_dbl.PL (added)
	* MPI/t/06_sendrecv_dbl.t (added)
	* MPI/t/06_sendrecv_dblarray.PL (added)
	* MPI/t/06_sendrecv_dblarray.t (added)
	* MPI/t/06_sendrecv_flt.PL (added)
	* MPI/t/06_sendrecv_flt.t (added)
	* MPI/t/06_sendrecv_fltarray.PL (added)
	* MPI/t/06_sendrecv_fltarray.t (added)
	* MPI/t/06_sendrecv_int.PL (added)
	* MPI/t/06_sendrecv_int.t (added)
	* MPI/t/06_sendrecv_intarray.PL (added)
	* MPI/t/06_sendrecv_intarray.t (added)
	* MPI/t/07_mpi_bcast.PL (added)
	* MPI/t/07_mpi_bcast.t (added)
	* MPI/t/07_mpi_bcastarray.PL (added)
	* MPI/t/07_mpi_bcastarray.t (added)
	* MPI/t/08_mpi_reduce.PL (added)
	* MPI/t/08_mpi_reduce.t (added)
	* MPI/t/09_mpi_barrier.PL (added)
	* MPI/t/09_mpi_barrier.t (added)
	* MPI/t/10_mpi_wtime.PL (added)
	* MPI/t/10_mpi_wtime.t (added)
	* MPI/t/11_mpi_scattergather.PL (added)
	* MPI/t/11_mpi_scattergather.t (added)
	* MPI/t/11_mpi_scattergatherarray.PL (added)
	* MPI/t/11_mpi_scattergatherarray.t (added)
	* MPI/t/12_mpi_allreduce.PL (added)
	* MPI/t/12_mpi_allreduce.t (added)
	* MPI/t/13_mpi_sendrecv.PL (added)
	* MPI/t/13_mpi_sendrecv.t (added)
	* MPI/t/greetings.c (added)
	* MPI/t/machinefile (added)
	* MPI/typemap (added)
	* MPI/utils.c (added)
	* README (added)
	* bin (added)
	* bin/add_utr_gff.pl (added)
	* bin/maker (added)
	* bin/maker2zff.pl (added)
	* bin/maker_manager (added)
	* bin/special_apps (added)
	* bin/special_apps/convert-hmm.pl (added)
	* bin/special_apps/exonerate_debugger (added)
	* bin/special_apps/maker_ngasp (added)
	* bin/special_apps/transposon_masker (added)
	* data (added)
	* data/dpp_contig.fasta (added)
	* data/dpp_proteins.fasta (added)
	* data/dpp_transcripts.fasta (added)
	* data/te_proteins.fasta (added)
	* lib (added)
	* lib/Bio (added)
	* lib/Bio/Search (added)
	* lib/Bio/Search/HSP (added)
	* lib/Bio/Search/HSP/PhatHSP (added)
	* lib/Bio/Search/HSP/PhatHSP.pod (added)
	* lib/Bio/Search/HSP/PhatHSP/Base.pm (added)
	* lib/Bio/Search/HSP/PhatHSP/blastn.pm (added)
	* lib/Bio/Search/HSP/PhatHSP/blastp.pm (added)
	* lib/Bio/Search/HSP/PhatHSP/blastx.pm (added)
	* lib/Bio/Search/HSP/PhatHSP/tblastn.pm (added)
	* lib/Bio/Search/HSP/PhatHSP/tblastx.pm (added)
	* lib/Bio/Search/Hit (added)
	* lib/Bio/Search/Hit/PhatHit (added)
	* lib/Bio/Search/Hit/PhatHit.pod (added)
	* lib/Bio/Search/Hit/PhatHit/Base.pm (added)
	* lib/Bio/Search/Hit/PhatHit/blastn.pm (added)
	* lib/Bio/Search/Hit/PhatHit/blastp.pm (added)
	* lib/Bio/Search/Hit/PhatHit/blastx.pm (added)
	* lib/Bio/Search/Hit/PhatHit/tblastn.pm (added)
	* lib/Bio/Search/Hit/PhatHit/tblastx.pm (added)
	* lib/Bio/SearchIO (added)
	* lib/Bio/SearchIO/wublasttable.pm (added)
	* lib/CGL (added)
	* lib/CGL/Annotation (added)
	* lib/CGL/Annotation.pm (added)
	* lib/CGL/Annotation/Feature (added)
	* lib/CGL/Annotation/Feature.pm (added)
	* lib/CGL/Annotation/Feature/Contig.pm (added)
	* lib/CGL/Annotation/Feature/Exon.pm (added)
	* lib/CGL/Annotation/Feature/Gene.pm (added)
	* lib/CGL/Annotation/Feature/Intron.pm (added)
	* lib/CGL/Annotation/Feature/Protein.pm (added)
	* lib/CGL/Annotation/Feature/Sequence_variant.pm (added)
	* lib/CGL/Annotation/Feature/Transcript.pm (added)
	* lib/CGL/Annotation/FeatureLocation.pm (added)
	* lib/CGL/Annotation/FeatureRelationship.pm (added)
	* lib/CGL/Annotation/GFF3 (added)
	* lib/CGL/Annotation/GFF3/DictyBase.pm (added)
	* lib/CGL/Annotation/GFF3/FlyBase.pm (added)
	* lib/CGL/Annotation/GFF3/Maker.pm (added)
	* lib/CGL/Annotation/GFF3/Maker_snap.pm (added)
	* lib/CGL/Annotation/GFF3/WormBase.pm (added)
	* lib/CGL/Annotation/GFF3/nGASP.pm (added)
	* lib/CGL/Annotation/GFF3/nGASP2.pm (added)
	* lib/CGL/Annotation/Iterator.pm (added)
	* lib/CGL/Annotation/Trace.pm (added)
	* lib/CGL/Clone.pm (added)
	* lib/CGL/Ontology (added)
	* lib/CGL/Ontology/GO.pm (added)
	* lib/CGL/Ontology/Node.pm (added)
	* lib/CGL/Ontology/NodeRelationship.pm (added)
	* lib/CGL/Ontology/Ontology.pm (added)
	* lib/CGL/Ontology/Parser (added)
	* lib/CGL/Ontology/Parser/OBO.pm (added)
	* lib/CGL/Ontology/SO.pm (added)
	* lib/CGL/Ontology/Trace.pm (added)
	* lib/CGL/Revcomp.pm (added)
	* lib/CGL/TranslationMachine.pm (added)
	* lib/CGL/Version.pm (added)
	* lib/CGL/gene_ontology.obo (added)
	* lib/CGL/so.new.obo (added)
	* lib/CGL/so.obo (added)
	* lib/CGL/sofa.obo (added)
	* lib/Datastore (added)
	* lib/Datastore/Base.pm (added)
	* lib/Datastore/CG.pm (added)
	* lib/Datastore/MD5.pm (added)
	* lib/Datastore/bin (added)
	* lib/Datastore/bin/ds_dir (added)
	* lib/Datastore/bin/ds_do (added)
	* lib/Datastore/docs (added)
	* lib/Datastore/docs/Datastore::Base.3pm (added)
	* lib/Datastore/docs/Datastore::CG.3pm (added)
	* lib/Datastore/docs/Datastore::MD5.3pm (added)
	* lib/Datastore/docs/ds_dir.1 (added)
	* lib/Datastore/docs/ds_do.1 (added)
	* lib/Dumper (added)
	* lib/Dumper/GFF (added)
	* lib/Dumper/GFF/GFF3.pm (added)
	* lib/Dumper/GFF/GFF3_DEF.pm (added)
	* lib/Dumper/GFF/GFFV3.pm (added)
	* lib/Dumper/SpaceBase.pm (added)
	* lib/Dumper/XML (added)
	* lib/Dumper/XML/Game.pm (added)
	* lib/Dumper/XML/Game_Xml.pm (added)
	* lib/Error (added)
	* lib/Error.pm (added)
	* lib/Error/Simple.pm (added)
	* lib/Error/docs (added)
	* lib/Error/docs/Error.3pm (added)
	* lib/Error/docs/Error::Simple.3pm (added)
	* lib/Fasta.pm (added)
	* lib/FastaChunk.pm (added)
	* lib/FastaChunker.pm (added)
	* lib/FastaFile.pm (added)
	* lib/Iterator (added)
	* lib/Iterator.pm (added)
	* lib/Iterator/Fasta.pm (added)
	* lib/PhatHit.pm (added)
	* lib/PhatHit_utils.pm (added)
	* lib/PhatHsp.pm (added)
	* lib/PostData.pm (added)
	* lib/Process (added)
	* lib/Process/MakerChunk.pm (added)
	* lib/Process/MakerTiers.pm (added)
	* lib/Shadower.pm (added)
	* lib/Shared_Functions.pm (added)
	* lib/SimpleCluster.pm (added)
	* lib/SpaceBase.pm (added)
	* lib/Widget (added)
	* lib/Widget.pm (added)
	* lib/Widget/.snap.pm.swp (added)
	* lib/Widget/PolyBayes.pm (added)
	* lib/Widget/RepeatMasker.pm (added)
	* lib/Widget/TblastN.pm (added)
	* lib/Widget/augustus.pm (added)
	* lib/Widget/blastn.pm (added)
	* lib/Widget/blastp.pm (added)
	* lib/Widget/blastx.pm (added)
	* lib/Widget/exonerate (added)
	* lib/Widget/exonerate.pm (added)
	* lib/Widget/exonerate/est2genome.pm (added)
	* lib/Widget/exonerate/est2genome.pm_orig (added)
	* lib/Widget/exonerate/est2genome.pm_rev (added)
	* lib/Widget/exonerate/protein2genome.pm (added)
	* lib/Widget/exonerate/protein2genome.pm_orig (added)
	* lib/Widget/exonerate/protein2genome.pm_rev (added)
	* lib/Widget/geneid.pm (added)
	* lib/Widget/genscan.pm (added)
	* lib/Widget/primer3.pm (added)
	* lib/Widget/qrna.pm (added)
	* lib/Widget/snap.pm (added)
	* lib/Widget/tblastx.pm (added)
	* lib/Widget/xdformat.pm (added)
	* lib/augustus (added)
	* lib/augustus/PhatHit.pm (added)
	* lib/augustus/PhatHsp.pm (added)
	* lib/auto (added)
	* lib/auto/Datastore (added)
	* lib/auto/Datastore/.packlist (added)
	* lib/auto/Datastore/Base (added)
	* lib/auto/Datastore/Base/autosplit.ix (added)
	* lib/auto/Datastore/CG (added)
	* lib/auto/Datastore/CG/autosplit.ix (added)
	* lib/auto/Datastore/MD5 (added)
	* lib/auto/Datastore/MD5/autosplit.ix (added)
	* lib/auto/Error (added)
	* lib/auto/Error/.packlist (added)
	* lib/clean.pm (added)
	* lib/cluster.pm (added)
	* lib/compare.pm (added)
	* lib/evaluator (added)
	* lib/exonerate (added)
	* lib/exonerate/PhatHSP (added)
	* lib/exonerate/PhatHSP/est2genome.pm (added)
	* lib/exonerate/PhatHSP/protein2genome.pm (added)
	* lib/exonerate/PhatHit (added)
	* lib/exonerate/PhatHit/est2genome.pm (added)
	* lib/exonerate/PhatHit/protein2genome.pm (added)
	* lib/exonerate/splice_info.pm (added)
	* lib/maker (added)
	* lib/maker/auto_annotator.pm (added)
	* lib/maker/join.pm (added)
	* lib/maker/quality_index.pm (added)
	* lib/maker/sens_spec.pm (added)
	* lib/perllocal.pod (added)
	* lib/polisher (added)
	* lib/polisher.pm (added)
	* lib/polisher/exonerate (added)
	* lib/polisher/exonerate.pm (added)
	* lib/polisher/exonerate/est.pm (added)
	* lib/polisher/exonerate/protein.pm (added)
	* lib/repeat_mask_seq.pm (added)
	* lib/repeatmasker (added)
	* lib/repeatmasker/PhatHit.pm (added)
	* lib/repeatmasker/PhatHsp.pm (added)
	* lib/runlog.pm (added)
	* lib/snap (added)
	* lib/snap/PhatHit.pm (added)
	* lib/snap/PhatHsp.pm (added)
	* lib/verifier (added)
	error