Migration

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Revision as of 18:07, 13 July 2009 by Tharris (talk | contribs)
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.:
total 148
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 atlas
-rwxrwxr-x  1 todd wormbase  2486 Jul  6 14:06 autocompleter2
drwxrwsr-x  4 todd wormbase  4096 Jul  6 14:06 cell
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:07 curate
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 28937 Jul  6 14:06 das
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 entry
drwxrwsr-x  4 todd wormbase  4096 Jul 13 13:14 gene
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 generic
-rwxrwxr-x  1 todd wormbase  1790 Jul  6 14:06 get
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 gmod
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:07 hunter
-rwxrwxr-x  1 todd wormbase  1555 Jul  6 14:06 id
drwxrwsr-x  8 todd wormbase  4096 Jul  9 12:33 lib
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 mapview
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 microarray
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 misc
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 motif
drwxrwsr-x  4 todd wormbase  4096 Jul  6 14:06 ontology
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 orthology
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 private
-rwxrwxr-x  1 todd wormbase  1034 Jul  6 14:06 rss
drwxrwsr-x  4 todd wormbase  4096 Jul  6 14:06 searches
drwxrwsr-x  4 todd wormbase  4096 Jul 13 12:41 seq
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 SiteDefs
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 SR_expression
-rw-rw-r--  1 todd wormbase  1639 Jul  6 14:06 style.xml
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 surveys
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 sw
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 util

./atlas:
total 16
-rwxrwxr-x  1 todd wormbase 4549 Jul  6 14:06 browse
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 2627 Jul  6 14:06 xy

./atlas/CVS:
total 12
-rw-rw-r--  1 todd wormbase 76 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 29 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./cell:
total 408
-rwxrwxr-x  1 todd wormbase  20053 Jul  6 14:06 cell.cgi
-rwxrwxr-x  1 todd wormbase  20272 Jul  6 14:06 cell.cgi.~1.49.~
drwxrwsr-x  2 todd wormbase   4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase   3916 Jul  6 14:06 make_pedigree.cgi
-rwxrwxr-x  1 todd wormbase    253 Jul  6 14:06 mindofworm
-rwxrwxr-x  1 todd wormbase 303783 Jul  6 14:06 neato
drwxrwsr-x  4 todd wormbase   4096 Jul  6 14:06 neuron
-rwxrwxr-x  1 todd wormbase   4042 Jul  6 14:06 neuron.cgi
-rw-rw-r--  1 todd wormbase  10451 Jul  6 14:06 no_pedigree.gif
-rwxrwxr-x  1 todd wormbase  17225 Jul  6 14:06 no_pedigree.png
-rw-rw-r--  1 todd wormbase   1674 Jul  6 14:06 pedigree.gif
-rw-rw-r--  1 todd wormbase   1318 Jul  6 14:06 Pedigree.pm
-rwxrwxr-x  1 todd wormbase   1527 Jul  6 14:06 pedigree.png

./cell/CVS:
total 12
-rw-rw-r--  1 todd wormbase 459 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  28 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./cell/neuron:
total 336
drwxrwsr-x  2 todd wormbase   4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase   1876 Jul  6 14:06 dot2png.cgi
drwxrwsr-x  3 todd wormbase   4096 Jul  6 14:06 img
-rwxrwxr-x  1 todd wormbase 303783 Jul  6 14:06 neato
-rwxrwxr-x  1 todd wormbase   3726 Jul  6 14:06 neuron.cgi
-rwxrwxr-x  1 todd wormbase   3419 Jul  6 14:06 neuron_png.pl
-rw-rw-r--  1 todd wormbase   7357 Jul  6 14:06 n.png
-rwxrwxr-x  1 todd wormbase   2108 Jul  6 14:06 plain2png.pl

./cell/neuron/CVS:
total 12
-rw-rw-r--  1 todd wormbase 264 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  35 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./cell/neuron/img:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./cell/neuron/img/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 39 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./curate:
total 28
-rwxrwxr-x  1 todd wormbase 6812 Jul  6 14:07 base
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:07 CVS
-rwxrwxr-x  1 todd wormbase 3865 Jul  6 14:07 online_forms
-rwxrwxr-x  1 todd wormbase 8474 Jul  6 14:07 submit

./curate/CVS:
total 12
-rw-rw-r--  1 todd wormbase 124 Jul  6 14:07 Entries
-rw-rw-r--  1 todd wormbase  30 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:07 Root

./CVS:
total 12
-rw-rw-r--  1 todd wormbase 535 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  23 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./entry:
total 20
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 16101 Jul  6 14:06 edit_gene

./entry/CVS:
total 12
-rw-rw-r--  1 todd wormbase 44 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 29 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./gene:
total 932
-rwxrwxr-x  1 todd wormbase  50302 Jul  6 14:07 allele
-rwxrwxr-x  1 todd wormbase   4767 Jul  6 14:07 antibody
drwxrwsr-x  2 todd wormbase   4096 Jul 10 11:08 CVS
-rwxrwxr-x  1 todd wormbase  22832 Jul  6 14:07 expression
-rw-rw-r--  1 todd wormbase   2357 Jul  6 14:07 expr_map.gif
-rw-rw-r--  1 todd wormbase   2406 Jul  6 14:07 expr_map.png
-rw-rw-r--  1 todd wormbase   5689 Jul  6 14:07 expr_map_small.gif
-rw-rw-r--  1 todd wormbase    629 Jul  6 14:07 expr_map_small.png
-rwxrwxr-x  1 todd wormbase   6467 Jul  6 14:07 expr_profile
-rwxrwxr-x  1 todd wormbase 140250 Jul 13 13:14 gene
-rwxrwxr-x  1 todd wormbase 138262 Jul 10 11:07 gene.~1.503.~
-rwxrwxr-x  1 todd wormbase   4397 Jul  6 14:07 geneapplet
-rwxrwxr-x  1 todd wormbase   7058 Jul  6 14:07 gene_class
-rwxrwxr-x  1 todd wormbase   1682 Jul  6 14:07 gene_in_profile
-rwxrwxr-x  1 todd wormbase 138332 Jul 11 13:37 gene.old
-rwxrwxr-x  1 todd wormbase   4466 Jul  6 14:07 genetable
-rwxrwxr-x  1 todd wormbase  14333 Jul  6 14:07 gmap
-rwxrwxr-x  1 todd wormbase   8019 Jul  6 14:07 homology_group
-rwxrwxr-x  1 todd wormbase  23764 Jul  6 14:07 interaction
-rwxrwxr-x  1 todd wormbase   2305 Jul  6 14:07 interaction_details
-rwxrwxr-x  1 todd wormbase  11293 Jul  6 14:07 locus
-rwxrwxr-x  1 todd wormbase   4477 Jul  6 14:07 mapping_data
-rwxrwxr-x  1 todd wormbase   3353 Jul  6 14:07 motif
-rw-rw-r--  1 todd wormbase  23335 Jul  6 14:07 mountains_coords.txt
-rwxrwxr-x  1 todd wormbase   3088 Jul  6 14:07 operon
-rwxrwxr-x  1 todd wormbase  29456 Jul  6 14:07 rearrange
-rwxrwxr-x  1 todd wormbase   5440 Jul  6 14:07 regulation
drwxrwsr-x  3 todd wormbase   4096 Jul  6 14:07 sk_map
-rwxrwxr-x  1 todd wormbase  12043 Jul  6 14:07 strain
-rwxrwxr-x  1 todd wormbase   5348 Jul  6 14:07 structure_data
-rwxrwxr-x  1 todd wormbase   5308 Jul  6 14:07 transgene
-rwxrwxr-x  1 todd wormbase   6108 Jul  6 14:07 transgene_tbls
-rwxrwxr-x  1 todd wormbase  92220 Jul  6 14:07 variation
-rwxrwxr-x  1 todd wormbase  77631 Jul  6 14:07 variation.~1.75.~

./gene/CVS:
total 12
-rw-rw-r--  1 todd wormbase 1300 Jul 10 11:08 Entries
-rw-rw-r--  1 todd wormbase   28 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase   45 Jul  6 14:07 Root

./gene/sk_map:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:07 CVS

./gene/sk_map/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:07 Entries
-rw-rw-r--  1 todd wormbase 35 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:07 Root

./generic:
total 16
-rwxrwxr-x  1 todd wormbase 1237 Jul  6 14:06 acetable
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS
-rw-rw-r--  1 todd wormbase 1380 Jul  6 14:06 report
-rwxrwxr-x  1 todd wormbase 3945 Jul  6 14:06 tree

./generic/CVS:
total 12
-rw-rw-r--  1 todd wormbase 119 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./gmod:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./gmod/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 28 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./hunter:
total 108
-rw-rw-r--  1 todd wormbase 46137 Jul  6 14:07 chromosome.gif
-rw-rw-r--  1 todd wormbase   961 Jul  6 14:07 chromosome.png
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:07 CVS
-rwxrwxr-x  1 todd wormbase 44020 Jul  6 14:07 hunter.cgi
-rwxrwxr-x  1 todd wormbase  6075 Jul  6 14:07 make_pic.cgi

./hunter/CVS:
total 12
-rw-rw-r--  1 todd wormbase 184 Jul  6 14:07 Entries
-rw-rw-r--  1 todd wormbase  30 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:07 Root

./lib:
total 528
drwxrwsr-x  3 todd wormbase   4096 Jul  6 14:06 CGI
drwxrwsr-x  4 todd wormbase   4096 Jul  6 14:07 CSS
-rwxrwxr-x  1 todd wormbase   6580 Jul  6 14:06 CSS.pm
drwxrwsr-x  2 todd wormbase   4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase   1337 Jul  6 14:06 develSubs.pm
-rw-rw-r--  1 todd wormbase   1314 Jul  6 14:06 ElegansOligos.pm
-rw-rw-r--  1 todd wormbase 130862 Jul  9 12:33 ElegansSubs.pm
-rw-rw-r--  1 todd wormbase 125723 Jul  6 14:06 ElegansSubs.pm.~1.433.~
-rw-rw-r--  1 todd wormbase 120148 Jul  6 14:07 ElegansSubs.pm.bak
-rw-rw-r--  1 todd wormbase  38711 Jul  6 14:06 GBsyn.pm
-rw-rw-r--  1 todd wormbase   5780 Jul  6 14:06 MerlynAO.pm
-rw-rw-r--  1 todd wormbase   3742 Jul  6 14:06 MerlynGO.pm
-rwxrwxr-x  1 todd wormbase    612 Jul  1 13:02 OntologySubs.pl
-rwxrwxr-x  1 todd wormbase    172 Jul  6 14:06 OrthologySubs.pm
-rw-rw-r--  1 todd wormbase   7651 Jul  6 14:06 pICalculator.pm
drwxrwsr-x  5 todd wormbase   4096 Jul  9 12:33 RSS
-rw-rw-r--  1 todd wormbase   8658 Jul  6 14:06 Seqview.pm
drwxrwsr-x  5 todd wormbase   4096 Jul  6 14:06 SKMAP
-rw-rw-r--  1 todd wormbase   5069 Jul  6 14:07 Splicer.pm
-rw-rw-r--  1 todd wormbase   6891 Jul  6 14:06 StandardURLDumpers.pm
-rw-rw-r--  1 todd wormbase   1283 Jul  6 14:06 Util.pm
drwxrwsr-x  4 todd wormbase   4096 Jul  9 12:33 WormBase
-rw-rw-r--  1 todd wormbase    395 Jul  6 14:06 WormBase.pm

./lib/CGI:
total 16
drwxrwsr-x  2 todd wormbase  4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase 10197 Jul  6 14:06 Explorer.pm

./lib/CGI/CVS:
total 12
-rw-rw-r--  1 todd wormbase 46 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 31 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./lib/CSS:
total 20
drwxrwsr-x  3 todd wormbase 4096 Jul  6 14:07 Adaptor
-rw-rw-r--  1 todd wormbase  223 Jul  6 14:07 Adaptor.pm
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase 4569 Jul  6 14:07 Selector.pm

./lib/CSS/Adaptor:
total 12
-rw-rw-r--  1 todd wormbase  503 Jul  6 14:07 AceGraphics.pm
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase  191 Jul  6 14:07 default.pm

./lib/CSS/Adaptor/CVS:
total 12
-rw-rw-r--  1 todd wormbase 92 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 39 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:07 Root

./lib/CSS/CVS:
total 12
-rw-rw-r--  1 todd wormbase 101 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:07 Root

./lib/CVS:
total 12
-rw-rw-r--  1 todd wormbase 739 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase  27 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./lib/RSS:
total 60
drwxrwsr-x  2 todd wormbase  4096 Jul  9 12:33 CVS
drwxrwsr-x  4 todd wormbase  4096 Jul  6 14:07 DB
-rw-rw-r--  1 todd wormbase 14687 Jul  9 12:33 ObjectHistory.pm
-rw-rw-r--  1 todd wormbase 14566 Jul  6 14:07 ObjectHistory.pm.~1.13.~
-rwxrwxr-x  1 todd wormbase  1475 Jul  6 14:07 populate_database.pl
-rw-rw-r--  1 todd wormbase  3885 Jul  6 14:07 README
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:07 sql
-rwxrwxr-x  1 todd wormbase   185 Jul  6 14:07 test.pl
-rwxrwxr-x  1 todd wormbase  1192 Jul  6 14:07 update_static_feeds.pl

./lib/RSS/CVS:
total 12
-rw-rw-r--  1 todd wormbase 256 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:07 Root

./lib/RSS/DB:
total 12
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
drwxrwsr-x  3 todd wormbase 4096 Jul  6 14:07 History
-rw-rw-r--  1 todd wormbase  125 Jul  6 14:07 History.pm

./lib/RSS/DB/CVS:
total 12
-rw-rw-r--  1 todd wormbase 57 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 34 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:07 Root

./lib/RSS/DB/History:
total 12
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase  403 Jul  6 14:07 History.pm
-rw-rw-r--  1 todd wormbase  476 Jul  6 14:07 Objects.pm

./lib/RSS/DB/History/CVS:
total 12
-rw-rw-r--  1 todd wormbase 88 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 42 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:07 Root

./lib/RSS/sql:
total 8
-rw-rw-r--  1 todd wormbase 1024 Jul  6 14:07 create_schema.sql
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS

./lib/RSS/sql/CVS:
total 12
-rw-rw-r--  1 todd wormbase 52 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 35 Jul  6 14:07 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:07 Root

./lib/SKMAP:
total 24
-rw-rw-r--  1 todd wormbase 2657 Jul  6 14:06 Config.pm
-rw-rw-r--  1 todd wormbase 1270 Jul  6 14:06 Coordinates.pm
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
drwxrwsr-x  3 todd wormbase 4096 Jul  6 14:06 Data
drwxrwsr-x  3 todd wormbase 4096 Jul  6 14:06 Image
-rwxrwxr-x  1 todd wormbase 1472 Jul  6 14:06 Search.pm

./lib/SKMAP/CVS:
total 12
-rw-rw-r--  1 todd wormbase 154 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase  33 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./lib/SKMAP/Data:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./lib/SKMAP/Data/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 38 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./lib/SKMAP/Image:
total 8
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase 2537 Jul  6 14:06 Figures.pm

./lib/SKMAP/Image/CVS:
total 12
-rw-rw-r--  1 todd wormbase 45 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 39 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./lib/WormBase:
total 104
-rw-rw-r--  1 todd wormbase 10048 Jul  6 14:06 AutocompleteLoad.pm
-rw-rw-r--  1 todd wormbase 13389 Jul  9 12:33 Autocomplete.pm
drwxrwsr-x  2 todd wormbase  4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase 16606 Jul  6 14:06 FetchData.pm
-rw-rw-r--  1 todd wormbase  6073 Jul  6 14:06 Formatting.pm
-rw-rw-r--  1 todd wormbase  5329 Jul  6 14:06 GMapView.pm
-rw-rw-r--  1 todd wormbase 12659 Jul  9 12:33 Table.pm
-rw-rw-r--  1 todd wormbase  9358 Jul  6 14:06 Toggle.pm
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 Util
-rw-rw-r--  1 todd wormbase  1293 Jul  6 14:06 Util.pm

./lib/WormBase/CVS:
total 12
-rw-rw-r--  1 todd wormbase 372 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase  36 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./lib/WormBase/Util:
total 8
drwxrwsr-x  2 todd wormbase 4096 Jul  9 12:33 CVS
-rw-rw-r--  1 todd wormbase 1304 Jul  6 14:06 Rearrange.pm

./lib/WormBase/Util/CVS:
total 12
-rw-rw-r--  1 todd wormbase 47 Jul  9 12:33 Entries
-rw-rw-r--  1 todd wormbase 41 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./mapview:
total 16
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 2668 Jul  6 14:06 dasdraw2
-rwxrwxr-x  1 todd wormbase 2467 Jul  6 14:06 geneticmap
-rwxrwxr-x  1 todd wormbase 3360 Jul  6 14:06 sequenceapplet

./mapview/CVS:
total 12
-rw-rw-r--  1 todd wormbase 134 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./microarray:
total 68
-rwxrwxr-x  1 todd wormbase  2671 Jul  6 14:06 cluster
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 13308 Jul  6 14:06 download
-rwxrwxr-x  1 todd wormbase  3304 Jul  6 14:06 expression_cluster
-rwxrwxr-x  1 todd wormbase  6600 Jul  6 14:06 microarray_aff
-rwxrwxr-x  1 todd wormbase  1246 Jul  6 14:06 microarray_smd
-rwxrwxr-x  1 todd wormbase 13412 Jul  6 14:06 results
-rwxrwxr-x  1 todd wormbase 10833 Jul  6 14:06 search

./microarray/CVS:
total 12
-rw-rw-r--  1 todd wormbase 309 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  34 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./misc:
total 336
-rwxrwxr-x  1 todd wormbase 14247 Jul  6 14:06 2005_survey
-rwxrwxr-x  1 todd wormbase   840 Jul  6 14:06 acedb
-rwxrwxr-x  1 todd wormbase  5528 Jul  6 14:06 author
-rwxrwxr-x  1 todd wormbase   991 Jul  6 14:06 author_example
-rwxrwxr-x  1 todd wormbase  8758 Jul  6 14:06 biblio
-rwxrwxr-x  1 todd wormbase  5837 Jul  6 14:06 c2c
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 11056 Jul  6 14:06 database_stats
-rwxrwxr-x  1 todd wormbase  5530 Jul  6 14:06 digest
-rwxrwxr-x  1 todd wormbase   699 Jul  6 14:06 download_features
-rwxrwxr-x  1 todd wormbase   728 Jul  6 14:06 download_sequence
-rwxrwxr-x  1 todd wormbase 13963 Jul  6 14:06 epic
-rwxrwxr-x  1 todd wormbase  5294 Jul  6 14:06 etree
-rwxrwxr-x  1 todd wormbase  6215 Jul  6 14:06 feedback
-rwxrwxr-x  1 todd wormbase  6353 Jul  6 14:06 format_datamining_example
-rwxrwxr-x  1 todd wormbase  3004 Jul  6 14:06 gbrowse_popup
-rwxrwxr-x  1 todd wormbase  3280 Jul  6 14:06 geo_map_by_paper
-rwxrwxr-x  1 todd wormbase  9692 Jul  6 14:06 glossary
-rwxrwxr-x  1 todd wormbase  1242 Jul  6 14:06 help
-rwxrwxr-x  1 todd wormbase  3779 Jul  6 14:06 inline_feed
-rwxrwxr-x  1 todd wormbase  6796 Jul  6 14:06 laboratory
-rwxrwxr-x  1 todd wormbase  4731 Jul  6 14:06 life_stage
-rwxrwxr-x  1 todd wormbase  1809 Jul  6 14:06 marc
-rwxrwxr-x  1 todd wormbase  3402 Jul  6 14:06 model
-rwxrwxr-x  1 todd wormbase   665 Jul  6 14:06 not_found
-rwxrwxr-x  1 todd wormbase 11723 Jul  6 14:06 paper
-rwxrwxr-x  1 todd wormbase 20521 Jul  6 14:06 person
-rwxrwxr-x  1 todd wormbase 10560 Jul  6 14:06 person_name
-rwxrwxr-x  1 todd wormbase 18882 Jul  6 14:06 phenotype
-rwxrwxr-x  1 todd wormbase   701 Jul  6 14:06 random_pic
-rwxrwxr-x  1 todd wormbase   188 Jul  6 14:06 redirect
-rwxrwxr-x  1 todd wormbase  3394 Jul  6 14:06 release_stats
-rwxrwxr-x  1 todd wormbase  2180 Jul  6 14:06 session
-rwxrwxr-x  1 todd wormbase 38513 Jul  6 14:06 site_map
-rwxrwxr-x  1 todd wormbase  5056 Jul  6 14:06 standard_urls
-rwxrwxr-x  1 todd wormbase  7434 Jul  6 14:06 submit_feedback
-rwxrwxr-x  1 todd wormbase   857 Jul  6 14:06 text
-rwxrwxr-x  1 todd wormbase  3860 Jul  6 14:06 wb_people
-rwxrwxr-x  1 todd wormbase   938 Jul  6 14:06 xml
-rwxrwxr-x  1 todd wormbase   916 Jul  6 14:06 xml_md5

./misc/CVS:
total 12
-rw-rw-r--  1 todd wormbase 1661 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase   28 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase   45 Jul  6 14:06 Root

./motif:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./motif/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 29 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./ontology:
total 11536
-rwxrwxr-x  1 todd wormbase   35612 Jul  6 14:06 anatomy
-rwxrwxr-x  1 todd wormbase    7734 Jul  6 14:06 anatomy_browser
-rwxrwxr-x  1 todd wormbase   25040 Jul  6 14:06 browse
-rwxrwxr-x  1 todd wormbase    4703 Jul  6 14:06 browser
drwxrwsr-x  3 todd wormbase    4096 Jul  6 14:06 browser_lib
-rwxrwxr-x  1 todd wormbase   23926 Jul  6 14:06 browse_tree
drwxrwsr-x  2 todd wormbase    4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase   24283 Jul  6 14:06 gene
-rwxrwxr-x  1 todd wormbase    9034 Jul  6 14:06 go_dag
-rwxrwxr-x  1 todd wormbase    7608 Jul  6 14:06 go_detail
-rwxrwxr-x  1 todd wormbase    8812 Jul  6 14:06 goterm
-rw-rw-r--  1 todd wormbase 1330936 Jul  6 14:06 id2name.txt
-rw-rw-r--  1 todd wormbase  964896 Jul  6 14:06 id2parents.txt
-rw-rw-r--  1 todd wormbase  536044 Jul  6 14:06 parent2ids.txt
-rwxrwxr-x  1 todd wormbase   17870 Jul  6 14:06 search
-rw-rw-r--  1 todd wormbase 8741690 Jul  6 14:06 search_data.txt
-rwxrwxr-x  1 todd wormbase   11945 Jul  6 14:06 tree_lister

./ontology/browser_lib:
total 40
-rwxrwxr-x  1 todd wormbase  2704 Jul  6 14:06 browser.initd
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase  1029 Jul  6 14:06 launch_ontology_sockets.sh
-rw-rw-r--  1 todd wormbase 22464 Jul  6 14:06 OBrowse.pm
-rw-rw-r--  1 todd wormbase   765 Jul  6 14:06 README

./ontology/browser_lib/CVS:
total 12
-rw-rw-r--  1 todd wormbase 189 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  44 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./ontology/CVS:
total 12
-rw-rw-r--  1 todd wormbase 659 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  32 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./orthology:
total 36
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 11398 Jul  6 14:06 disease
-rwxrwxr-x  1 todd wormbase 10591 Jul  6 14:06 gene
-rwxrwxr-x  1 todd wormbase  5841 Jul  6 14:06 search

./orthology/CVS:
total 12
-rw-rw-r--  1 todd wormbase 118 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  33 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./private:
total 24
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 6514 Jul  6 14:06 manage_newsfeeds
-rwxrwxr-x  1 todd wormbase 3288 Jul  6 14:06 test_urls
-rwxrwxr-x  1 todd wormbase 5939 Jul  6 14:06 update_newsfeed

./private/CVS:
total 12
-rw-rw-r--  1 todd wormbase 141 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./searches:
total 600
drwxrwsr-x  3 todd wormbase  4096 Jul  6 14:06 advanced
-rwxrwxr-x  1 todd wormbase  7784 Jul  6 14:06 aql_query
-rwxrwxr-x  1 todd wormbase 17902 Jul  6 14:06 basic
-rwxrwxr-x  1 todd wormbase 55519 Jul  6 14:06 batch_genes
-rwxrwxr-x  1 todd wormbase 20537 Jul  6 14:06 blast0212
-rwxrwxr-x  1 todd wormbase 47081 Jul  6 14:06 blast_blat
-rwxrwxr-x  1 todd wormbase  9731 Jul  6 14:06 blast_ori
-rwxrwxr-x  1 todd wormbase   154 Jul  6 14:06 blat
-rwxrwxr-x  1 todd wormbase  2484 Jul  6 14:06 browser
-rwxrwxr-x  1 todd wormbase  4222 Jul  6 14:06 class_query
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 11843 Jul  6 14:06 dasview
-rwxrwxr-x  1 todd wormbase  4391 Jul  6 14:06 download_index
-rwxrwxr-x  1 todd wormbase 13931 Jul  6 14:06 epcr
-rwxrwxr-x  1 todd wormbase 95462 Jul  6 14:06 expr_search
-rwxrwxr-x  1 todd wormbase  5457 Jul  6 14:06 fast_facts
-rwxrwxr-x  1 todd wormbase  5437 Jul  6 14:06 gotable
-rwxrwxr-x  1 todd wormbase  8860 Jul  6 14:06 graf.cgi
-rwxrwxr-x  1 todd wormbase 13523 Jul  6 14:06 hunter.cgi
-rwxrwxr-x  1 todd wormbase 35626 Jul  6 14:06 info_dump
-rwxrwxr-x  1 todd wormbase  8016 Jul  6 14:06 interval
-rwxrwxr-x  1 todd wormbase 18785 Jul  6 14:06 markers
-rwxrwxr-x  1 todd wormbase 10634 Jul  6 14:06 multi
-rwxrwxr-x  1 todd wormbase  4865 Jul  6 14:06 multi.search
-rwxrwxr-x  1 todd wormbase  3830 Jul  6 14:06 neuron302.cgi
-rwxrwxr-x  1 todd wormbase 28272 Jul  6 14:06 neuron_display
-rwxrwxr-x  1 todd wormbase  5183 Jul  6 14:06 neuron_graf.cgi
-rwxrwxr-x  1 todd wormbase  8858 Jul  6 14:06 pedigree
-rwxrwxr-x  1 todd wormbase  6165 Jul  6 14:06 query
-rwxrwxr-x  1 todd wormbase 15846 Jul  6 14:06 rnai_search
-rwxrwxr-x  1 todd wormbase  4415 Jul  6 14:06 search_index
-rwxrwxr-x  1 todd wormbase  1697 Jul  6 14:06 standard_urls
-rwxrwxr-x  1 todd wormbase 36155 Jul  6 14:06 strains
-rwxrwxr-x  1 todd wormbase  2358 Jul  6 14:06 text
-rwxrwxr-x  1 todd wormbase  1926 Jul  6 14:06 text302
-rwxrwxr-x  1 todd wormbase  6349 Jul  6 14:06 wb_query

./searches/advanced:
total 60
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 43224 Jul  6 14:06 dumper
-rwxrwxr-x  1 todd wormbase  4289 Jul  6 14:06 dumper.cfg
-rw-rw-r--  1 todd wormbase  2268 Jul  6 14:06 dumper.methods.txt

./searches/advanced/CVS:
total 12
-rw-rw-r--  1 todd wormbase 136 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  41 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./searches/CVS:
total 12
-rw-rw-r--  1 todd wormbase 1475 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase   32 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase   45 Jul  6 14:06 Root

./seq:
total 680
-rwxrwxr-x  1 todd wormbase   1009 Jul  6 14:06 align
-rwxrwxr-x  1 todd wormbase  11448 Jul  6 14:06 aligner
-rwxrwxr-x  1 todd wormbase  11644 Jul  6 14:06 clone
drwxrwsr-x  2 todd wormbase   4096 Jul  6 14:06 CVS
-rwxr-xr-x  1 root wormbase  34287 Jul 13 12:33 das
-rwxrwxr-x  1 todd wormbase   2202 Jul  6 14:06 dasdraw
-rwxrwxr-x  1 todd wormbase   2390 Jul  6 14:06 dna
-rwxrwxr-x  1 todd wormbase   4985 Jul  6 14:06 do_align
-rwxrwxr-x  1 todd wormbase  24840 Jul  6 14:06 ebsyn
-rwxrwxr-x  1 todd wormbase  15999 Jul  6 14:06 frend
drwxr-sr-x  2 todd wormbase   4096 Jul 10 10:00 gb2
-rwxr-xr-x  1 root wormbase   9258 Jul 13 12:33 gbgff
-rwxr-xr-x  1 todd wormbase 125302 Jul 13 12:41 gbrowse
-rwxr-xr-x  1 todd wormbase  15843 Jul 13 12:33 gbrowse_details
-rwxr-xr-x  1 todd wormbase   4654 Jul 13 12:33 gbrowse_est
-rwxr-xr-x  1 todd wormbase  35795 Jul 13 12:33 gbrowse_img
-rwxr-xr-x  1 todd wormbase  50095 Jul 13 12:33 gbrowse_moby
-rwxr-xr-x  1 todd wormbase  50059 Jul 13 12:33 gbrowse_syn
-rwxrwxr-x  1 todd wormbase   4292 Jul  6 14:06 interaction
-rwxrwxr-x  1 todd wormbase   3571 Jul  6 14:06 interaction_viewer
-rwxr-xr-x  1 root wormbase    993 Jul 13 12:33 moby_server
-rwxrwxr-x  1 todd wormbase   7636 Jul  6 14:06 pcr
-rwxrwxr-x  1 todd wormbase   7634 Jul  6 14:06 position_matrix
-rwxrwxr-x  1 todd wormbase   4047 Jul  6 14:06 promoter
-rwxrwxr-x  1 todd wormbase  34886 Jul  6 14:06 protein
-r--r--r--  1 todd wormbase    701 Jul 10 09:34 README
-rwxrwxr-x  1 todd wormbase  17613 Jul  6 14:06 rnai
-rwxrwxr-x  1 todd wormbase   8614 Jul  6 14:06 sage
-rwxrwxr-x  1 todd wormbase  45150 Jul  6 14:06 sequence
-rwxrwxr-x  1 todd wormbase  13506 Jul  6 14:06 show_mult_align
-rwxrwxr-x  1 todd wormbase  24250 Jul  6 14:06 transcript
-rwxrwxr-x  1 todd wormbase  24282 Jul  6 14:06 tr_script
-rwxr-xr-x  1 root wormbase   4166 Jul 13 12:33 tutorial_test.pl
-rwxrwxr-x  1 todd wormbase   3256 Jul  6 14:06 wtp
-rwxrwxr-x  1 todd wormbase   2405 Jul  6 14:06 y2h

./seq/CVS:
total 12
-rw-rw-r--  1 todd wormbase 1036 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase   27 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase   45 Jul  6 14:06 Root

./seq/gb2:
total 76
-r--r--r--  1 todd wormbase  1119 Jul 10 09:34 gbgff
-r-xr-xr-x  1 todd wormbase   671 Jul 10 09:34 gbrowse
-r-xr-xr-x  1 todd wormbase 18077 Jul 10 09:34 gbrowse_details
-r-xr-xr-x  1 todd wormbase 21468 Jul 10 09:34 gbrowse_gmap
-r-xr-xr-x  1 todd wormbase 20962 Jul 10 09:34 gbrowse_img

./SiteDefs:
total 4
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./SiteDefs/CVS:
total 12
-rw-rw-r--  1 todd wormbase  2 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 32 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./SR_expression:
total 80
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 10605 Jul  6 14:06 SRcell.pl
-rwxrwxr-x  1 todd wormbase 21958 Jul  6 14:06 SR_expression.pl
-rwxrwxr-x  1 todd wormbase 11220 Jul  6 14:06 SRsearch.pl
-rwxrwxr-x  1 todd wormbase 26697 Jul  6 14:06 SRsubmit.pl

./SR_expression/CVS:
total 12
-rw-rw-r--  1 todd wormbase 182 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  37 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./surveys:
total 84
-rwxrwxr-x  1 todd wormbase 14247 Jul  6 14:06 2005_wormbase
-rwxrwxr-x  1 todd wormbase 13122 Jul  6 14:06 2006_topics_meetings
-rwxrwxr-x  1 todd wormbase 27239 Jul  6 14:06 2007_wormbase
-rwxrwxr-x  1 todd wormbase 16724 Jul  6 14:06 2007_wormbook
drwxrwsr-x  2 todd wormbase  4096 Jul  6 14:06 CVS

./surveys/CVS:
total 12
-rw-rw-r--  1 todd wormbase 193 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  31 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root

./sw:
total 12
-rwxrwxr-x  1 todd wormbase 4488 Jul  6 14:06 browse
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS

./sw/CVS:
total 12
-rw-rw-r--  1 todd wormbase 41 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase 26 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase 45 Jul  6 14:06 Root

./util:
total 12
drwxrwsr-x  2 todd wormbase 4096 Jul  6 14:06 CVS
-rwxrwxr-x  1 todd wormbase 1237 Jul  6 14:06 dump_version
-rwxrwxr-x  1 todd wormbase 3122 Jul  6 14:06 wormbase.pm.defaults

./util/CVS:
total 12
-rw-rw-r--  1 todd wormbase 100 Jul  6 14:06 Entries
-rw-rw-r--  1 todd wormbase  28 Jul  6 14:06 Repository
-rw-rw-r--  1 todd wormbase  45 Jul  6 14:06 Root