Author: pwang
Date: 2013-02-22 13:56:11 -0800 (Fri, 22 Feb 2013)
New Revision: 31137
Added:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_da.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_de.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en_US.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_es.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_fr.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_it.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_pl.properties
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/bingo_gui.properties
Removed:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/data/bingo_gui.properties
Log:
Data reorganized
Deleted:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/data/bingo_gui.properties
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/data/bingo_gui.properties
2013-02-22 19:52:51 UTC (rev 31136)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/data/bingo_gui.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -1,77 +0,0 @@
-#default startup settings for Bingo
-correction_def = Benjamini & Hochberg False Discovery Rate (FDR) correction
-tests_def = Hypergeometric test
-categories_def = Overrepresented categories after correction
-overrep_def = Overrepresentation
-refset_def = Use whole annotation as reference set
-signif_def = 0.05
-annotation_file_def = S_cerevisiae_default
-species_def = Saccharomyces cerevisiae
-ontology_file_def = GO_Biological_Process
-namespace_def = biological_process
-annotation_default = true
-ontology_default = true
-file_output = true
-#current ontology files
-ontology.GO_PROCESS=GO_Biological_Process
-ontology.GO_FUNCTION=GO_Molecular_Function
-ontology.GO_COMPONENT=GO_Cellular_Component
-ontology.GO_FULL=GO_Full
-ontology.GOSLIM_GENERIC=GOSlim_Generic
-ontology.GOSLIM_GOA=GOSlim_GOA
-ontology.GOSLIM_PLANTS=GOSlim_Plants
-ontology.GOSLIM_YEAST=GOSlim_Yeast
-#default namespaces supported for .obo files
-namespace.biological_process=biological_process
-namespace.molecular_function=molecular_function
-namespace.cellular_component=cellular_component
-namespace.goslim_candida=goslim_candida
-namespace.goslim_generic=goslim_generic
-namespace.goslim_goa=goslim_goa
-namespace.goslim_pir=goslim_pir
-namespace.goslim_plant=goslim_plant
-namespace.goslim_yeast=goslim_yeast
-namespace.gosubset_prok=gosubset_prok
-#current species supported
-#The key species.X is used as the labels in the GUI but species is taken out
and _ is converted to a space
-species.Saccharomyces_cerevisiae = S_cerevisiae_default
-species.Arabidopsis_thaliana = A_thaliana_default
-species.Schizosaccharomyces_pombe = S_pombe_default
-species.Trypanosoma_brucei = T_brucei_default
-species.Caenorhabditis_elegans = C_elegans_default
-species.Drosophila_melanogaster = D_melanogaster_default
-species.Brachydanio_rerio = B_rerio_default
-species.Homo_Sapiens = H_sapiens_default
-species.Mus_musculus = M_musculus_default
-species.Rattus_norvegicus = R_norvegicus_default
-species.Plasmodium_falsiparum = P_falsiparum_3D7_default
-species.Oryza_sativa = O_sativa_japonica_default
-species.Bacillus_anthracis_Ames = B_anthracis_Ames_default
-species.Shewanella_oneidensis_MR-1 = S_oneidensis_MR-1_default
-species.Pseudomonas_syringae_DC3000 = P_syringae_DC3000_default
-species.Coxiella_burnetii_RSA = C_burnetii_RSA_default
-species.Geobacter_sulfurreducens_PCA = G_sulfurreducens_PCA_default
-species.Methylococcus_capsulatus_Bath = M_capsulatus_Bath_default
-species.Listeria_monocytogenes_4b_F2365 = L_monocytogenes_4b_F2365_default
-#species.Dictyostelium_discoideum = D_discoideum_default
-#species.Candida_albicans = C_albicans_default
-#species.Pseudomonas_aeruginosa_PAO1 = P_aeruginosa_PAO1_default
-#species.Anaplasma_phagocytophilum_HZ = A_phagocytophilum_HZ_default
-species.Campylobacter_jejuni_RM1221 = C_jejuni_RM1221_default
-species.Dehalococcoides_ethenogenes_195 = D_ethenogenes_195_default
-#species.Ehrlichia_chaffeensis_Arkansas = E_chaffeensis_Arkansas_default
-#species.Neorickettsia_sennetsu_Miyayama = N_sennetsu_Miyayama_default
-species.Silicibacter_pomeroyi_DSS-3 = S_pomeroyi_DSS-3_default
-#species.Vibrio_cholerae = V_cholerae_default
-species.Gallus_gallus = G_gallus_default
-species.Bos_taurus = B_taurus_default
-#species.Leishmania_major = L_major_default
-#species.Glossina_morsitans = G_morsitans_default
-
-
-
-
-
-
-
-
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,56 @@
+# Strings for com.Ostermiller.util.Browser
+# Copyright (C) 2001-2002 Stephen Ostermiller
+# http://ostermiller.org/contact.pl?regarding=Java+Utilities
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+# The list of names that Java uses for different Locales:
+# http://java.sun.com/products/jdk/1.1/docs/guide/intl/locale.doc.html
+# Translated files need to be named Browser_<locale>.properties
+# for example Browser_en_US.properties
+#
+# These files are loaded as a Properties file resource bundle.
+# Documentation for ResourceBundles:
+# http://java.sun.com/j2se/1.3/docs/api/java/util/ResourceBundle.html
+# Documentation for Properties file format:
+#
http://java.sun.com/j2se/1.3/docs/api/java/util/Properties.html#load(java.io.InputStream)
+# When a string contains a {0} it is using the Java MessageFormat to insert
data.
+# Documentation for MessageFormat:
+# http://java.sun.com/j2se/1.3/docs/api/java/text/MessageFormat.html
+#
+# Language files are inherit from each other. So if something doesn't need
+# to be or can't be translated, leave it out.
+# Comments (such as this) do not need to be translated and should be removed.
+# Please add comments that you feel are relevent for your language and
+# preserve the GPL license notice, changing the copyright to yourself.
+#
+
+dialog.title=Browser Configuration
+dialog.ok=OK
+dialog.cancel=Cancel
+dialog.apply=Apply
+dialog.reset=Defaults
+dialog.browse=Browse
+dialog.commandLines=Command lines:
+dialog.description=When a web browser needs to be opened, these command lines
will be\n\
+ executed in the order they appear here until one of them
works.\n\
+ {0} is replaced by the URL to be opened.
+failed=Browser launch failed
+nocommand=Browser execute command not defined
+warning=Warning:
+html.openurls=Open URLs
+noarguments=Please specify a web site to display.
+help.option=help
+version.option=version
+gui.option=gui
+conf.option=conf
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_da.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_da.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_da.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_da.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,28 @@
+# Danish strings for com.Ostermiller.util.Browser
+# Copyright (C) 2001 Werner http://dmoz.org/profiles/wkn.html
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+dialog.title=Browser Konfiguration
+dialog.ok=OK
+dialog.cancel=Afbryd
+dialog.reset=Default
+dialog.browse=Browse
+dialog.commandLines=Kommandolinier:
+dialog.description=Når en web-browser skal åbnes, vil disse kommandolinier
blive\n\
+ udført i den rækekfølge, de står her, indtil en af dem
virker.\n\
+ {0} erstattes af den URL, der skal åbnes.
+failed=Åbning af browser mislykkedes
+nocommand=Browserens udførelseskommando er ikke defineret
+warning=Advarsel:
+html.openurls=Åbne URLer
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_de.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_de.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_de.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_de.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,35 @@
+# German strings for TulipChain http://ostermiller.org/tulipchain/
+# Copyright (C) 2001 Stephan Natschlaeger http://dmoz.org/profiles/stn77.html
+# Copyright (C) 2002 Daniel Kuhn <[email protected]>
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+dialog.title=Browser-Einstellungen
+dialog.ok=OK
+dialog.cancel=Abbrechen
+dialog.apply=Übernehmen
+dialog.reset=Standard
+dialog.browse=Durchsuchen
+dialog.commandLines=Befehlszeilen:
+dialog.description=Um einen Browser zu öffnen, werden die Befehle in der
angegebenen\n\
+ Reihenfolge ausgeführt bis einer funktioniert.\n\
+ Dabei wird {0} durch die zu öffnenden URL ersetzt.
+failed=Start des Browsers fehlgeschlagen
+nocommand=Kein Befehl zum Starten eines Browser definiert
+warning=Warnung:
+html.openurls=URLs öffnen
+noarguments=Bitte gib eine anzuzeigende Seite an.
+help.option=help
+version.option=version
+gui.option=gui
+conf.option=conf
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_en.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,17 @@
+# English strings for com.Ostermiller.util.Browser
+# Copyright (C) 2001 Stephen Ostermiller
+# http://ostermiller.org/contact.pl?regarding=Java+Utilities
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+# currently no changes from the default strings.
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en_US.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_en_US.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en_US.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_en_US.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,17 @@
+# US English strings for com.Ostermiller.util.Browser
+# Copyright (C) 2001 Stephen Ostermiller
+# http://ostermiller.org/contact.pl?regarding=Java+Utilities
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+# currently no changes from the English strings.
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_es.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_es.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_es.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_es.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,29 @@
+# Spanish strings for com.Ostermiller.util.Browser
+# Cadena de caracteres en español para com.Ostermiller.util.Browser
+# Copyright 2002 Miriam Ferrari Stella <[email protected]>
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+dialog.title=Configuración del Navegador
+dialog.ok=OK
+dialog.cancel=Cancelar
+dialog.reset=Reestablecer
+dialog.browse=Explorar
+dialog.commandLines=Command lines:
+dialog.description=Al abrirse el navegador, estos comandos serán\n\
+ ejecutados en su orden hasta que alguno funcione.\n\
+ {0} es reemplazado por la URL a ser abierta.
+failed=Browser launch failed
+nocommand=Browser execute command not defined
+warning=Advertencia:
+html.openurls=Abrir URLs
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_fr.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_fr.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_fr.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_fr.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,16 @@
+# Copyright 2002 Miniwark (http://miniwark.com/)
+dialog.title=Configuration du navigateur
+dialog.ok=OK
+dialog.cancel=Annuler
+dialog.reset=Par défaut
+dialog.browse=Naviguer
+dialog.commandLines=Lignes de commandes:
+
+dialog.description=Quand un navigateur doit être lancé, ces lignes de
commandes\n\
+sont éxécutées dans l'ordre jusqu'à ce qu'une d'entre elles fonctionne.\n\
+{0} est remplacé par l'URL pour être ouvert.
+
+failed=échec du lancement du navigateur
+nocommand=Commande d'execution du navigateur non définie
+warning=Alerte :
+html.openurls=Ouvre les URLs
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_it.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_it.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_it.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_it.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,28 @@
+# Strings for com.Ostermiller.util.Browser
+# Copyright (C) 2002 Rocco Curcio <[email protected]>
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+dialog.title=Configurazione del Browser
+dialog.ok=OK
+dialog.cancel=Cancella
+dialog.reset=Default
+dialog.browse=Esplora
+dialog.commandLines=Linee di Comando:
+dialog.description=Quando un browser web deve essere aperto, queste linee di
comando verrano\n\
+ eseguite nell'ordine che appiaono qua finché una di esse
funzioni.\n\
+ {0} verrà modificato con la URL da aprire.
+failed=Avvio del browser fallito
+nocommand=Comando di esecuzione del browser non definito
+warning=Attenzione:
+html.openurls=URL aperti
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_pl.properties
(from rev 31123,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/java/BiNGO/Browser_pl.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_pl.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/Browser_pl.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,32 @@
+# Polish strings for com.Ostermiller.util.Browser
+# Copyright (C) 2003 Marcin Drzymala <[email protected]>
+#
+# This program is free software; you can redistribute it and/or modify
+# it under the terms of the GNU General Public License as published by
+# the Free Software Foundation; either version 2 of the License, or
+# (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+# GNU General Public License for more details.
+#
+# See COPYING.TXT for details.
+
+dialog.apply=Zg\u0142o\u015b si\u0119
+dialog.browse=Przegl\u0105daj
+dialog.cancel=Anuluj
+dialog.commandLines=Linia polece\u0144:
+dialog.description=Kiedy ma zosta\u0107 otwarta przegl\u0105darka internetowa,
zostan\u0105 wykonane \n\
+ poni\u017csze komendy w podanej kolejno\u015bci, a\u017c do
zadzia\u0142ania pierwszej z nich.\n\
+ W miejsce {0} zostanie u\u017cyty adres URL, który ma by\u0107
otwarty.
+dialog.ok=OK
+dialog.reset=Warto\u015bci domy\u015blne
+dialog.title=Konfiguracja przegl\u0105darki
+failed=Próba otwarcia przegl\u0105darki nie powiod\u0142a si\u0119
+help.option=pomoc
+html.openurls=Otwórz URL-e
+noarguments=Okre\u015bl stron\u0119 do wy\u015bwietlenia.
+nocommand=Komenda uruchamiaj\u0105ca przegl\u0105dark\u0119 nie zdefiniowana
+version.option=wersja
+warning=Uwaga:
Copied:
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/bingo_gui.properties
(from rev 31131,
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/data/bingo_gui.properties)
===================================================================
---
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/bingo_gui.properties
(rev 0)
+++
csplugins/trunk/ucsd/kono/bingo-impl/src/main/resources/props/bingo_gui.properties
2013-02-22 21:56:11 UTC (rev 31137)
@@ -0,0 +1,77 @@
+#default startup settings for Bingo
+correction_def = Benjamini & Hochberg False Discovery Rate (FDR) correction
+tests_def = Hypergeometric test
+categories_def = Overrepresented categories after correction
+overrep_def = Overrepresentation
+refset_def = Use whole annotation as reference set
+signif_def = 0.05
+annotation_file_def = S_cerevisiae_default
+species_def = Saccharomyces cerevisiae
+ontology_file_def = GO_Biological_Process
+namespace_def = biological_process
+annotation_default = true
+ontology_default = true
+file_output = true
+#current ontology files
+ontology.GO_PROCESS=GO_Biological_Process
+ontology.GO_FUNCTION=GO_Molecular_Function
+ontology.GO_COMPONENT=GO_Cellular_Component
+ontology.GO_FULL=GO_Full
+ontology.GOSLIM_GENERIC=GOSlim_Generic
+ontology.GOSLIM_GOA=GOSlim_GOA
+ontology.GOSLIM_PLANTS=GOSlim_Plants
+ontology.GOSLIM_YEAST=GOSlim_Yeast
+#default namespaces supported for .obo files
+namespace.biological_process=biological_process
+namespace.molecular_function=molecular_function
+namespace.cellular_component=cellular_component
+namespace.goslim_candida=goslim_candida
+namespace.goslim_generic=goslim_generic
+namespace.goslim_goa=goslim_goa
+namespace.goslim_pir=goslim_pir
+namespace.goslim_plant=goslim_plant
+namespace.goslim_yeast=goslim_yeast
+namespace.gosubset_prok=gosubset_prok
+#current species supported
+#The key species.X is used as the labels in the GUI but species is taken out
and _ is converted to a space
+species.Saccharomyces_cerevisiae = S_cerevisiae_default
+species.Arabidopsis_thaliana = A_thaliana_default
+species.Schizosaccharomyces_pombe = S_pombe_default
+species.Trypanosoma_brucei = T_brucei_default
+species.Caenorhabditis_elegans = C_elegans_default
+species.Drosophila_melanogaster = D_melanogaster_default
+species.Brachydanio_rerio = B_rerio_default
+species.Homo_Sapiens = H_sapiens_default
+species.Mus_musculus = M_musculus_default
+species.Rattus_norvegicus = R_norvegicus_default
+species.Plasmodium_falsiparum = P_falsiparum_3D7_default
+species.Oryza_sativa = O_sativa_japonica_default
+species.Bacillus_anthracis_Ames = B_anthracis_Ames_default
+species.Shewanella_oneidensis_MR-1 = S_oneidensis_MR-1_default
+species.Pseudomonas_syringae_DC3000 = P_syringae_DC3000_default
+species.Coxiella_burnetii_RSA = C_burnetii_RSA_default
+species.Geobacter_sulfurreducens_PCA = G_sulfurreducens_PCA_default
+species.Methylococcus_capsulatus_Bath = M_capsulatus_Bath_default
+species.Listeria_monocytogenes_4b_F2365 = L_monocytogenes_4b_F2365_default
+#species.Dictyostelium_discoideum = D_discoideum_default
+#species.Candida_albicans = C_albicans_default
+#species.Pseudomonas_aeruginosa_PAO1 = P_aeruginosa_PAO1_default
+#species.Anaplasma_phagocytophilum_HZ = A_phagocytophilum_HZ_default
+species.Campylobacter_jejuni_RM1221 = C_jejuni_RM1221_default
+species.Dehalococcoides_ethenogenes_195 = D_ethenogenes_195_default
+#species.Ehrlichia_chaffeensis_Arkansas = E_chaffeensis_Arkansas_default
+#species.Neorickettsia_sennetsu_Miyayama = N_sennetsu_Miyayama_default
+species.Silicibacter_pomeroyi_DSS-3 = S_pomeroyi_DSS-3_default
+#species.Vibrio_cholerae = V_cholerae_default
+species.Gallus_gallus = G_gallus_default
+species.Bos_taurus = B_taurus_default
+#species.Leishmania_major = L_major_default
+#species.Glossina_morsitans = G_morsitans_default
+
+
+
+
+
+
+
+
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