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[jalview.git] / forester / data / surfacing / genome_locations.txt

diff --git a/forester/data/surfacing/genome_locations.txt b/forester/data/surfacing/genome_locations.txt
index 7c19b16..9faab1d 100644 (file)
--- a/forester/data/surfacing/genome_locations.txt
+++ b/forester/data/surfacing/genome_locations.txt
@@ -1,4 +1,4 @@
-# Last updated: 140319
+# Last updated: 140709
 #
 # Ophistokonta::Animals (mammals)
 BOVIN   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/BOVIN.fasta
@@ -208,7 +208,7 @@ ENTBH   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/E
 ENTDS   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ENTDS.fasta
 ENTHI   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ENTHI.fasta
 POLPA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/POLPA.fasta
-# Corticata::Archaeplastida::Viridaeplantae::Streptophyta
+# Viridaeplantae::Streptophyta
 AMBTC   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/AMBTC.fasta
 AQUCA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/AQUCA.fasta
 ARALY   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ARALY.fasta
@@ -240,7 +240,7 @@ SORBI   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/S
 SOYBN   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/SOYBN.fasta
 THEHA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/THEHA.fasta
 VITVI   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/VITVI.fasta
-# Corticata::Archaeplastida::Viridaeplantae::Chlorophyta
+# Viridaeplantae::Chlorophyta
 ASCXX   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ASCXX.fasta
 CHLRE   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/CHLRE.fasta
 CHLVA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/CHLVA.fasta
@@ -251,9 +251,11 @@ ORCXX   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/O
 OSTLU   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/OSTLU.fasta
 OSTTA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/OSTTA.fasta
 VOLCA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/VOLCA.fasta
-# Corticata::Archaeplastida::Rhodophyta
+# Rhodophyta
 CYAME   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/CYAME.fasta
-# Corticata::Chromalveolates
+# Glaucophyta
+CYAPA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/CYAPA.fasta
+# Chromalveolates
 AKEXX   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/AKEXX.fasta
 ALIXX   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ALIXX.fasta
 AURAN   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/AURAN.fasta
@@ -287,7 +289,7 @@ THAPS   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/T
 THEAN   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/THEAN.fasta
 THEPA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/THEPA.fasta
 TOXGO   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/TOXGO.fasta
-# Cabozoa::Excavata
+# Excavata
 BODSA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/BODSA.fasta
 GIAIC   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/GIAIC.fasta
 LEIBR   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/LEIBR.fasta
@@ -296,8 +298,9 @@ LEIMA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/L
 NAEGR   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/NAEGR.fasta
 TRIVA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/TRIVA.fasta
 TRYB2   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/TRYB2.fasta
-# Cabozoa::Rhizaria
+# Rhizaria
 BIGNA   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/BIGNA.fasta
+RETFI   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/RETFI.fasta
 # Archaea
 AERPE   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/AERPE.fasta
 ARCFU   /home/czmasek/DATA/SEQUENCES/GENOMES/PROTEIN_PREDICTIONS_CDHIT_095/ALL/ARCFU.fasta