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westram
2021-10-30 19:03
#19
Rev.: 18821
-
11 lines of code changed in 3 files:
-
ARBDB:
Makefile (+1),
ad_save_load.cxx (+10 -1)
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CORE:
arb_zfile.cxx (-4)
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westram
2021-10-30 17:19
#18
Rev.: 18820
-
7 lines of code changed in 2 files:
-
ARBDB:
ad_save_load.cxx (+3 -3)
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CORE:
arb_zfile.cxx (+4)
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westram
2021-10-25 14:26
#17
Rev.: 18812
-
1 lines of code changed in 1 file:
-
SL/DB_SCANNER:
db_scanner.cxx (+1 -1)
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westram
2021-10-12 15:20
#16
Rev.: 18789
-
6 lines of code changed in 3 files:
-
HELP_SOURCE:
arb_help2xml.cxx (+1 -1),
to_help.xsl (+4 -2)
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UNIT_TESTER/run/help:
unittest.hlp (+1 -1)
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westram
2021-10-10 09:33
#15
Rev.: 18781
-
142 lines of code changed in 467 files:
-
arb_OS_X.txt (-1)
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ARBDB:
adsocket.cxx (+12 -12),
gb_aci.cxx (+1 -1)
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ARB_GDE:
GDE_ParseMenu.cxx (+1 -1)
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EDIT4:
ED4_text_terminals.cxx (+1 -1)
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GENOM_IMPORT:
Importer.cxx (+1 -1)
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HELP_SOURCE:
Makefile (+1 -1),
arb_help.dtd (+1 -1),
arb_help2xml.cxx (+5 -5),
arb_xslt.sh (+1 -1),
generate_index.pl (+1 -1),
help.readme (+24 -7),
to_help.xsl (+3 -2)
-
HELP_SOURCE/oldhelp:
FAQS.hlp (del),
FORM.hlp (del),
Makefile (del),
Protection.hlp (del),
aaali.hlp (del),
accessibility_sai.hlp (del),
aci.hlp (del),
acisrt.hlp (del),
ad_align.hlp (del),
ad_extended.hlp (del),
advice.hlp (del),
ae2_ift.hlp (del),
agde_MAUS.hlp (del),
agde_sativa.hlp (del),
ale.hlp (del),
align.hlp (del),
alignment.hlp (del),
ap_stack.hlp (del),
arb.hlp (del),
arb.pdf.gz (del),
arb.ps.gz (del),
arb_comm (del),
arb_commands.hlp (del),
arb_db.hlp (del),
arb_edit.hlp (del),
arb_edit4.hlp (del),
arb_envar.hlp (del),
arb_export.hlp (del),
arb_export_nds.hlp (del),
arb_gde.hlp (del),
arb_import.hlp (del),
arb_intro.hlp (del),
arb_merge.hlp (del),
arb_merge_into.hlp (del),
arb_merge_outof.hlp (del),
arb_merge_workflow.hlp (del),
arb_ntree.hlp (del),
arb_pars.hlp (del),
arb_pars_init.hlp (del),
arb_secedit.hlp (del),
asciiprint.hlp (del),
awt_csp.hlp (del),
bonds.hlp (del),
bootstrap.hlp (del),
branch_analysis.hlp (del),
change_security.hlp (del),
check_quality.hlp (del),
checkfield.hlp (del),
checkgcg.hlp (del),
chimera_check.hlp (del),
cluster_group.hlp (del),
color.hlp (del),
color_loadsave.hlp (del),
color_props.hlp (del),
color_props_groups.hlp (del),
color_ranges.hlp (del),
colorize.hlp (del),
commands.hlp (del),
compare_taxonomy.hlp (del),
compare_topo.hlp (del),
concatenate.hlp (del),
config_saveload.hlp (del),
configuration.hlp (del),
configurations.hlp (del),
cons_params.hlp (del),
consense_algo.hlp (del),
consense_tree.hlp (del),
consensus.hlp (del),
consensus.ps.gz (del),
consensus_def.hlp (del),
console.hlp (del),
copyNpaste.hlp (del),
copyright.hlp (del),
count_chars.hlp (del),
csp_2_gnuplot.hlp (del),
del_list.hlp (del),
dewachter_ift.hlp (del),
di_clusters.hlp (del),
displayField.hlp (del),
dist.hlp (del),
dssp_ift.hlp (del),
e4.hlp (del),
e4_background_priority.hlp (del),
e4_block.hlp (del),
e4_consensus.hlp (del),
e4_defaults.hlp (del),
e4_get_species.hlp (del),
e4_mode.hlp (del),
e4_modsai.hlp (del),
e4_options.hlp (del),
e4_replace.hlp (del),
e4_search.hlp (del),
ebi_ift.hlp (del),
ecoliref.hlp (del),
ed4_flags.hlp (del),
ed4_nds.hlp (del),
edit_config.hlp (del),
exec_bug.hlp (del),
experiment_info.hlp (del),
experiment_search.hlp (del),
export_format.hlp (del),
export_test.hlp (del),
exportcursor.hlp (del),
extended.hlp (del),
faligner.hlp (del),
fasta_ift.hlp (del),
fastdnaml.hlp (del),
field_sel_new.hlp (del),
field_shader.hlp (del),
galign_main.hlp (del),
gde.hlp (del),
gde_flat_ift.hlp (del),
gde_ift.hlp (del),
gde_menus.hlp (del),
gen_create.hlp (del),
gen_disp_style.hlp (del),
gen_jump.hlp (del),
gen_mode.hlp (del),
gen_new_view.hlp (del),
gen_options.hlp (del),
gene_extract.hlp (del),
gene_hide.hlp (del),
gene_info.hlp (del),
gene_map.hlp (del),
gene_mark.hlp (del),
gene_mode.hlp (del),
gene_options.hlp (del),
gene_pseudo.hlp (del),
gene_search.hlp (del),
gene_species.hlp (del),
gene_species_field_transfer.hlp (del),
gene_species_mark.hlp (del),
genes.hlp (del),
glossary.hlp (del),
group_by_field.hlp (del),
group_rename.hlp (del),
group_search.hlp (del),
group_trees.hlp (del),
helix.hlp (del),
helixsym.hlp (del),
help.hlp (del),
help.tar (del),
import_test.hlp (del),
importift.hlp (del),
index (del),
input_mask.hlp (del),
input_mask_format.hlp (del),
input_mask_new.hlp (del),
insdel.hlp (del),
insdel_sai.hlp (del),
insdelchar.hlp (del),
islandhopping.hlp (del),
iupac-codes.hlp (del),
join_species.hlp (del),
keeled_groups.hlp (del),
kernlin.hlp (del),
macro.hlp (del),
man_arb_edit4.hlp (del),
manage_test.hlp (del),
manual.hlp (del),
mark.hlp (del),
mark_configs.hlp (del),
mark_duplicates.hlp (del),
mark_genes.hlp (del),
mark_list.hlp (del),
mark_long_branches.hlp (del),
markbyref.hlp (del),
markcolor.hlp (del),
matrix_settings.hlp (del),
max_freq.hlp (del),
merge_species.hlp (del),
mergetaggedfield.hlp (del),
mg_alignment.hlp (del),
mg_configs.hlp (del),
mg_extendeds.hlp (del),
mg_names.hlp (del),
mg_preserve.hlp (del),
mg_spec_sel_field.hlp (del),
mg_species.hlp (del),
mg_species_configs.hlp (del),
mg_trees.hlp (del),
mg_xfer_field_of_listed.hlp (del),
mg_xfer_field_of_sel.hlp (del),
missbase.hlp (del),
mod_field_list.hlp (del),
mode.hlp (del),
mode_angle.hlp (del),
mode_group.hlp (del),
mode_info.hlp (del),
mode_kernlin.hlp (del),
mode_length.hlp (del),
mode_lzoom.hlp (del),
mode_mark.hlp (del),
mode_move.hlp (del),
mode_nni.hlp (del),
mode_optimize.hlp (del),
mode_pzoom.hlp (del),
mode_reset.hlp (del),
mode_rotate.hlp (del),
mode_select.hlp (del),
mode_set_root.hlp (del),
mode_setroot.hlp (del),
mode_spread.hlp (del),
mode_swap.hlp (del),
mode_width.hlp (del),
mode_www.hlp (del),
move_groups.hlp (del),
mp_params.hlp (del),
multifurcate.hlp (del),
multiprobe.hlp (del),
multiproberesults.hlp (del),
namesadmin.hlp (del),
ne_align_seq.hlp (del),
ne_compl.hlp (del),
ne_copy_sequence.hlp (del),
ne_new_sequence.hlp (del),
ne_pretty.hlp (del),
ne_replace.hlp (del),
ne_search.hlp (del),
nekey_map.hlp (del),
neprops.hlp (del),
neprops_data.hlp (del),
newwindow.hlp (del),
next_neighbours.hlp (del),
next_neighbours_common.hlp (del),
next_neighbours_listed.hlp (del),
nni.hlp (del),
no_tree.hlp (del),
nt_align_select.hlp (del),
nt_keys.hlp (del),
nt_props_data.hlp (del),
nt_tree_marker_settings.hlp (del),
nt_tree_select.hlp (del),
nt_tree_settings.hlp (del),
nt_tree_settings_bootstrap.hlp (del),
nt_tree_settings_expert.hlp (del),
optimize.hlp (del),
organism_mark.hlp (del),
organisms.hlp (del),
pa_add.hlp (del),
pa_add_sel.hlp (del),
pa_bootstrap.hlp (del),
pa_branchlengths.hlp (del),
pa_globopti.hlp (del),
pa_kernlin.hlp (del),
pa_locopti.hlp (del),
pa_mixtree.hlp (del),
pa_optimizer.hlp (del),
pa_partial.hlp (del),
pa_quick.hlp (del),
pa_quick_sel.hlp (del),
pa_ranchlengths.hlp (del),
pa_reset.hlp (del),
pa_value.hlp (del),
pars.hlp (del),
parser.hlp (del),
partial_sequences.hlp (del),
pd_match_iupac.hlp (del),
pd_spec_param.hlp (del),
pfold.hlp (del),
pfold_props.hlp (del),
pfold_sai.hlp (del),
ph_export_markerline.hlp (del),
phyl.hlp (del),
phylo.hlp (del),
pm_spec_param.hlp (del),
pos_var_pars.hlp (del),
pos_variability.ps.gz (del),
primer.hlp (del),
primer_new.hlp (del),
primer_parameters.hlp (del),
primer_result.hlp (del),
probe_param.hlp (del),
probeadmin.hlp (del),
probedesign.hlp (del),
probedesignresult.hlp (del),
probematch.hlp (del),
probespec.hlp (del),
prop_configs.hlp (del),
prop_configs_edit.hlp (del),
props_frame.hlp (del),
props_nds.hlp (del),
props_www.hlp (del),
proteinViewer.hlp (del),
pt_server.hlp (del),
questions.hlp (del),
quit.hlp (del),
rdp_ift.hlp (del),
realign_dna.hlp (del),
reg.hlp (del),
regexpr.hlp (del),
registration.hlp (del),
rename.hlp (del),
rerepair.hlp (del),
reset_win_layout.hlp (del),
resortbyother.hlp (del),
resorttree.hlp (del),
result.hlp (del),
rl_dna_prot.hlp (del),
rna3d_changeMolecule.hlp (del),
rna3d_dispBases.hlp (del),
rna3d_dispHelices.hlp (del),
rna3d_dispMolecule.hlp (del),
rna3d_general.hlp (del),
rna3d_manual.pdf (del),
rna3d_manual.pdf.gz (del),
rna3d_manual.ps.gz (del),
rna3d_mapSeqData.hlp (del),
rst_log_zoom.hlp (del),
rst_phys_zoom.hlp (del),
saiProbe.hlp (del),
saiProbeHelp.hlp (del),
saicalc.hlp (del),
save.hlp (del),
save_def.hlp (del),
save_matrix.hlp (del),
saveas.hlp (del),
savedef.hlp (del),
scandb.hlp (del),
search_duplicates.hlp (del),
search_equal_fields.hlp (del),
searching.hlp (del),
sec_bonddef.hlp (del),
sec_display.hlp (del),
sec_imexport.hlp (del),
sec_keys.hlp (del),
sec_main.hlp (del),
sec_mode.hlp (del),
sec_props.hlp (del),
secedit_imexport.hlp (del),
security.hlp (del),
sel_box.hlp (del),
sel_fil.hlp (del),
sel_spec.hlp (del),
selected.hlp (del),
selected_gene.hlp (del),
seq_quality.hlp (del),
sequence_colors.hlp (del),
set_color_of_listed.hlp (del),
set_meny_fields.hlp (del),
set_protection.hlp (del),
set_reference.hlp (del),
sina_main.hlp (del),
sp_IDs.hlp (del),
sp_count_mrk.hlp (del),
sp_del_mrkd.hlp (del),
sp_info.hlp (del),
sp_info_locked.hlp (del),
sp_invert_mrk.hlp (del),
sp_mark.hlp (del),
sp_mrk_all.hlp (del),
sp_mrk_tree.hlp (del),
sp_rename.hlp (del),
sp_search.hlp (del),
sp_sort_fld.hlp (del),
sp_sort_phyl.hlp (del),
sp_sp_2_ext.hlp (del),
sp_umrk_all.hlp (del),
sp_umrk_tree.hlp (del),
spa_copy.hlp (del),
spa_create.hlp (del),
spa_delete.hlp (del),
spa_rename.hlp (del),
spaf_convert.hlp (del),
spaf_create.hlp (del),
spaf_delete.hlp (del),
spaf_reorder.hlp (del),
spaf_scandb.hlp (del),
species.hlp (del),
species_configs.hlp (del),
species_configs_highlight.hlp (del),
species_configs_saveload.hlp (del),
species_info.hlp (del),
species_join.hlp (del),
srt.hlp (del),
st_ml.hlp (del),
submission.hlp (del),
sv_def.hlp (del),
sync_colors.hlp (del),
syncroots.hlp (del),
syncscroll.hlp (del),
tags.hlp (del),
tbl_boot2len.hlp (del),
tbl_justify.hlp (del),
tbl_reset.hlp (del),
tbl_scale.hlp (del),
ted_boot.hlp (del),
tgroupall.hlp (del),
tgroupcolor.hlp (del),
tgroupnmrkd.hlp (del),
tkeep_mrkd.hlp (del),
toggle_secinfo.hlp (del),
topology_shader.hlp (del),
tr_export.hlp (del),
tr_import.hlp (del),
tr_jump.hlp (del),
tr_type_irs.hlp (del),
tr_type_list.hlp (del),
tr_type_nds.hlp (del),
tr_type_radial.hlp (del),
track_ali_changes.hlp (del),
trans_anal.hlp (del),
transl_table.hlp (del),
translate_dna_2_pro.hlp (del),
tree2file.hlp (del),
tree2prt.hlp (del),
tree_cmp.hlp (del),
tree_diff.hlp (del),
tree_group.hlp (del),
tree_pseudo.hlp (del),
tree_shading.hlp (del),
treeadm.hlp (del),
trees.hlp (del),
trm_boot.hlp (del),
trm_del.hlp (del),
trm_mrkd.hlp (del),
tungroupall.hlp (del),
undo.hlp (del),
unittest.hlp (del),
universal_ift.hlp (del),
unmark_list.hlp (del),
user_matrix.hlp (del),
version.hlp (del),
viewdiff.hlp (del),
visualizeSAI.hlp (del),
vn_delete.hlp (del),
vn_delete.hlp~ (del),
vn_import.hlp (del),
vn_import.hlp~ (del),
vn_search.hlp (del),
vn_search.hlp~ (del),
vn_suggest.hlp (del),
vn_suggest.hlp~ (del),
write_field_list.hlp (del),
xferset.hlp (del),
xterm.hlp (del)
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HELP_SOURCE/oldhelp/prompt:
format_alignments.hlp (del)
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HELP_SOURCE/oldhelp/seer:
login.hlp (del),
main_help.hlp (del),
select_attributes.hlp (del),
select_upload.hlp (del)
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NTREE:
AP_consensus.cxx (+2 -2)
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PARSIMONY:
PARS_main.cxx (+2 -2)
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PERL_SCRIPTS/lib:
ali_dnapro.pm (+1 -1)
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PROBE:
PT_new_design.cxx (+1 -1)
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SL/PRONUC:
AP_codon_table.cxx (+1 -1)
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SL/PVP:
AP_pos_var.cxx (+1 -1)
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SOURCE_TOOLS:
check_resources.pl (+22 -6),
diff2grep.pl (+19 -7)
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TOOLS:
arb_consensus_tree.cxx (+1 -1)
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UNIT_TESTER/run/help:
unittest.hlp (+2 -2),
unittest.xml (+2 -2)
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WINDOW:
AW_help.cxx (+34 -28)
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util:
arb_srclst.pl (+2 -2)
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westram
2021-10-08 16:16
#14
Rev.: 18762
-
38 lines of code changed in 7 files:
-
HELP_SOURCE/oldhelp:
accessibility_sai.hlp (+1),
e4_modsai.hlp (+1),
extended.hlp (+32 -13),
helix.hlp (+1),
saiProbe.hlp (+1 -1),
saicalc.hlp (+1),
visualizeSAI.hlp (+1)
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westram
2021-10-08 16:14
#13
Rev.: 18761
-
46 lines of code changed in 5 files:
-
HELP_SOURCE/oldhelp:
accessibility_sai.hlp (+1),
displayField.hlp (+1 -2),
e4.hlp (+1),
saiProbe.hlp (+12 -12),
visualizeSAI.hlp (+31 -23)
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westram
2021-10-08 16:07
#12
Rev.: 18760
-
32 lines of code changed in 4 files:
-
AWT:
AWT_asciiprint.cxx (-1)
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HELP_SOURCE/oldhelp:
saiProbe.hlp (+6 -5)
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PROBE_DESIGN:
SaiProbeVisualization.cxx (+19 -12)
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lib/pictures:
probeSaiColors.fig (+7 -6)
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westram
2021-10-07 19:41
#11
Rev.: 18756
-
11 lines of code changed in 2 files:
-
SL/DB_SCANNER:
db_scanner.cxx (+9 -2),
db_scanner.hxx (+2)
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westram
2021-10-07 19:28
#10
Rev.: 18755
-
13 lines of code changed in 2 files:
-
WINDOW:
AW_window.cxx (+12),
aw_window.hxx (+1)
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westram
2021-10-07 19:18
#9
Rev.: 18754
-
134 lines of code changed in 5 files:
-
MERGE:
MG_extendeds.cxx (+2 -2)
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NTREE:
ad_ext.cxx (+1 -1)
-
SL/ITEMS:
Makefile (+36),
SAIs.cxx (new 93),
items.h (+2)
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westram
2021-10-06 10:46
#8
Rev.: 18753
-
12 lines of code changed in 1 file:
-
HELP_SOURCE/oldhelp:
reg.hlp (+12 -2)
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westram
2021-10-06 10:43
#7
Rev.: 18752
-
2 lines of code changed in 2 files:
-
ARBDB:
ad_t_prot.h (+1 -1),
aditem.cxx (+1 -1)
-
westram
2021-10-04 18:23
#6
Rev.: 18751
-
11 lines of code changed in 2 files:
-
ARBDB:
ad_prot.h (+1 -1),
adsocket.cxx (+10 -11)
-
westram
2021-10-04 17:58
#5
Rev.: 18750
-
16 lines of code changed in 10 files:
-
ARBDB:
ad_prot.h (+1 -1),
ad_t_prot.h (+1 -1),
adfile.cxx (+1 -1),
adsocket.cxx (+7 -4),
adtree.cxx (+1 -1)
-
SL/AW_NAME:
AW_names_admin.cxx (+1 -1)
-
SL/DB_QUERY:
db_query.cxx (+1 -1)
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TOOLS:
arb_write_tree_comment.cxx (+1 -1)
-
WINDOW:
AW_button.cxx (+1 -1),
AW_xfig.cxx (+1 -1)
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westram
2021-10-04 17:54
#4
Rev.: 18749
-
1 lines of code changed in 1 file:
-
PERL2ARB:
extract_perl_interface.pl (+1 -1)
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westram
2021-10-04 17:51
#3
Rev.: 18748
-
19 lines of code changed in 2 files:
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PERL2ARB:
extract_perl_interface.pl (+18 -12)
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PERLTOOLS:
arb_proto_2_xsub.cxx (+1)
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westram
2021-10-02 13:13
#2
Rev.: 18747
-
1 lines of code changed in 1 file:
-
PERL2ARB:
.gitignore (+1)
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westram
2021-10-01 18:07
#1
Rev.: 18746
-
784 lines of code changed in 5 files:
-
PERL2ARB:
DOC.html (del),
DOC.txt (new 587),
Makefile.main (+7 -2),
extract_perl_interface.pl (new 189)
-
util:
arb_srclst.pl (+1)