JAL-629 delete stray files

diff --git a/test/jalview/io/uniref50-relaxed.phy b/test/jalview/io/uniref50-relaxed.phy
deleted file mode 100644 (file)
index d444d13..0000000
--- a/test/jalview/io/uniref50-relaxed.phy
+++ /dev/null
@@ -1,48 +0,0 @@
-15 157
-FER_CAPAA    -----------------------------------------------------------A
-FER_CAPAN    MA------SVSATMISTSFMPRKPAVTSL-KPIPNVGE--ALFGLKS-A--NGGKVTCMA
-FER1_SOLLC   MA------SISGTMISTSFLPRKPAVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-Q93XJ9_SOLTU MA------SISGTMISTSFLPRKPVVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-FER1_PEA     MATT---PALYGTAVSTSFLRTQPMPMSV-TTTKAFSN--GFLGLKT-SLKRGDLAVAMA
-Q7XA98_TRIPR MATT---PALYGTAVSTSFMRRQPVPMSV-ATTTTTKAFPSGFGLKSVSTKRGDLAVAMA
-FER1_MESCR   MAAT--TAALSGATMSTAFAPK--TPPMTAALPTNVGR--ALFGLKS-SASR-GRVTAMA
-FER1_SPIOL   MAAT--TTTMMG--MATTFVPKPQAPPMMAALPSNTGR--SLFGLKT-GSR--GGRMTMA
-FER3_RAPSA   -----------------------------------------------------------A
-FER2_ARATH   MAST----ALSSAIVGTSFIRRSPAPISLRSLPSANTQ--SLFGLKS-GTARGGRVTAMA
-FER_BRANA    -----------------------------------------------------------A
-FER1_ARATH   MAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-Q93Z60_ARATH MAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-FER1_MAIZE   MATVLGSPRAPAFFFSSSSLRAAPAPTAV--ALPAAKV--GIMGRSA-SSRR--RLRAQA
-O80429_MAIZE MAAT---------ALSMSILR---APPPCFSSPLRLRV--AVAKPLA-APMRRQLLRAQA
-
-SYKVKLITPDGPIEFDCPDDVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPDGPIEFDCPDNVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPEGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGSVDQSDG
-SYKVKLITPDGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGTVDQSDG
-SYKVKLVTPDGTQEFECPSDVYILDHAEEVGIDLPYSCRAGSCSSCAGKVVGGEVDQSDG
-TYKVKLITPEGPQEFDCPDDVYILDHAEEVGIELPYSCRAGSCSSCAGKVVNGNVNQEDG
-AYKVTLVTPEGKQELECPDDVYILDAAEEAGIDLPYSCRAGSCSSCAGKVTSGSVNQDDG
-AYKVTLVTPTGNVEFQCPDDVYILDAAEEEGIDLPYSCRAGSCSSCAGKLKTGSLNQDDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGELEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGFVDQSDE
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDQAEEDGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDFAEEEGIDLPFSCRAGSCSSCAGKVVSGSVDQSDQ
-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDEDQEAAGFVLTCVAYPKGDVTIETHKEEELTA-
-KFLDDDQEAAGFVLTCVAYPKCDVTIETHKEEELTA-
-SFLDDEQIEAGFVLTCVAYPTSDVVIETHKEEDLTA-
-SFLDDEQIEGGWVLTCVAFPTSDVTIETHKEEELTA-
-SFLDDDQIKEGWVLTCVAYPTGDVTIETHKEEELTA-
-SFLDDDQIDEGWVLTCAAYPVSDVTIETHKEEELTA-
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHREEDMV--
-SFLDDEQIGEGFVLTCAAYPTSDVTIETHKEEDIV--
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHKEEELV--
-SFLDDEQMSEGYVLTCVAYPTSDVVIETHKEEAIM--
-SFLDD--------------------------------
-SYLDDGQIADGWVLTCHAYPTSDVVIETHKEEELTGA
-SFLNDNQVADGWVLTCAAYPTSDVVIETHKEDDLL--

diff --git a/test/jalview/io/uniref50-strict.phy b/test/jalview/io/uniref50-strict.phy
deleted file mode 100644 (file)
index ae38cec..0000000
--- a/test/jalview/io/uniref50-strict.phy
+++ /dev/null
@@ -1,48 +0,0 @@
-15 157
-FER_CAPAA -----------------------------------------------------------A
-FER_CAPAN MA------SVSATMISTSFMPRKPAVTSL-KPIPNVGE--ALFGLKS-A--NGGKVTCMA
-FER1_SOLLCMA------SISGTMISTSFLPRKPAVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-Q93XJ9_SOLMA------SISGTMISTSFLPRKPVVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-FER1_PEA  MATT---PALYGTAVSTSFLRTQPMPMSV-TTTKAFSN--GFLGLKT-SLKRGDLAVAMA
-Q7XA98_TRIMATT---PALYGTAVSTSFMRRQPVPMSV-ATTTTTKAFPSGFGLKSVSTKRGDLAVAMA
-FER1_MESCRMAAT--TAALSGATMSTAFAPK--TPPMTAALPTNVGR--ALFGLKS-SASR-GRVTAMA
-FER1_SPIOLMAAT--TTTMMG--MATTFVPKPQAPPMMAALPSNTGR--SLFGLKT-GSR--GGRMTMA
-FER3_RAPSA-----------------------------------------------------------A
-FER2_ARATHMAST----ALSSAIVGTSFIRRSPAPISLRSLPSANTQ--SLFGLKS-GTARGGRVTAMA
-FER_BRANA -----------------------------------------------------------A
-FER1_ARATHMAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-Q93Z60_ARAMAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-FER1_MAIZEMATVLGSPRAPAFFFSSSSLRAAPAPTAV--ALPAAKV--GIMGRSA-SSRR--RLRAQA
-O80429_MAIMAAT---------ALSMSILR---APPPCFSSPLRLRV--AVAKPLA-APMRRQLLRAQA
-
-SYKVKLITPDGPIEFDCPDDVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPDGPIEFDCPDNVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPEGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGSVDQSDG
-SYKVKLITPDGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGTVDQSDG
-SYKVKLVTPDGTQEFECPSDVYILDHAEEVGIDLPYSCRAGSCSSCAGKVVGGEVDQSDG
-TYKVKLITPEGPQEFDCPDDVYILDHAEEVGIELPYSCRAGSCSSCAGKVVNGNVNQEDG
-AYKVTLVTPEGKQELECPDDVYILDAAEEAGIDLPYSCRAGSCSSCAGKVTSGSVNQDDG
-AYKVTLVTPTGNVEFQCPDDVYILDAAEEEGIDLPYSCRAGSCSSCAGKLKTGSLNQDDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGELEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGFVDQSDE
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDQAEEDGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDFAEEEGIDLPFSCRAGSCSSCAGKVVSGSVDQSDQ
-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDEDQEAAGFVLTCVAYPKGDVTIETHKEEELTA-
-KFLDDDQEAAGFVLTCVAYPKCDVTIETHKEEELTA-
-SFLDDEQIEAGFVLTCVAYPTSDVVIETHKEEDLTA-
-SFLDDEQIEGGWVLTCVAFPTSDVTIETHKEEELTA-
-SFLDDDQIKEGWVLTCVAYPTGDVTIETHKEEELTA-
-SFLDDDQIDEGWVLTCAAYPVSDVTIETHKEEELTA-
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHREEDMV--
-SFLDDEQIGEGFVLTCAAYPTSDVTIETHKEEDIV--
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHKEEELV--
-SFLDDEQMSEGYVLTCVAYPTSDVVIETHKEEAIM--
-SFLDD--------------------------------
-SYLDDGQIADGWVLTCHAYPTSDVVIETHKEEELTGA
-SFLNDNQVADGWVLTCAAYPTSDVVIETHKEDDLL--

diff --git a/test/jalview/io/uniref50.phy b/test/jalview/io/uniref50.phy
deleted file mode 100644 (file)
index ae38cec..0000000
--- a/test/jalview/io/uniref50.phy
+++ /dev/null
@@ -1,48 +0,0 @@
-15 157
-FER_CAPAA -----------------------------------------------------------A
-FER_CAPAN MA------SVSATMISTSFMPRKPAVTSL-KPIPNVGE--ALFGLKS-A--NGGKVTCMA
-FER1_SOLLCMA------SISGTMISTSFLPRKPAVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-Q93XJ9_SOLMA------SISGTMISTSFLPRKPVVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMA
-FER1_PEA  MATT---PALYGTAVSTSFLRTQPMPMSV-TTTKAFSN--GFLGLKT-SLKRGDLAVAMA
-Q7XA98_TRIMATT---PALYGTAVSTSFMRRQPVPMSV-ATTTTTKAFPSGFGLKSVSTKRGDLAVAMA
-FER1_MESCRMAAT--TAALSGATMSTAFAPK--TPPMTAALPTNVGR--ALFGLKS-SASR-GRVTAMA
-FER1_SPIOLMAAT--TTTMMG--MATTFVPKPQAPPMMAALPSNTGR--SLFGLKT-GSR--GGRMTMA
-FER3_RAPSA-----------------------------------------------------------A
-FER2_ARATHMAST----ALSSAIVGTSFIRRSPAPISLRSLPSANTQ--SLFGLKS-GTARGGRVTAMA
-FER_BRANA -----------------------------------------------------------A
-FER1_ARATHMAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-Q93Z60_ARAMAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMA
-FER1_MAIZEMATVLGSPRAPAFFFSSSSLRAAPAPTAV--ALPAAKV--GIMGRSA-SSRR--RLRAQA
-O80429_MAIMAAT---------ALSMSILR---APPPCFSSPLRLRV--AVAKPLA-APMRRQLLRAQA
-
-SYKVKLITPDGPIEFDCPDDVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPDGPIEFDCPDNVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDG
-SYKVKLITPEGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGSVDQSDG
-SYKVKLITPDGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGTVDQSDG
-SYKVKLVTPDGTQEFECPSDVYILDHAEEVGIDLPYSCRAGSCSSCAGKVVGGEVDQSDG
-TYKVKLITPEGPQEFDCPDDVYILDHAEEVGIELPYSCRAGSCSSCAGKVVNGNVNQEDG
-AYKVTLVTPEGKQELECPDDVYILDAAEEAGIDLPYSCRAGSCSSCAGKVTSGSVNQDDG
-AYKVTLVTPTGNVEFQCPDDVYILDAAEEEGIDLPYSCRAGSCSSCAGKLKTGSLNQDDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGELEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGFVDQSDE
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDQAEEDGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQ
-TYNVKLITPEGEVELQVPDDVYILDFAEEEGIDLPFSCRAGSCSSCAGKVVSGSVDQSDQ
-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
-NFLDEDQEAAGFVLTCVAYPKGDVTIETHKEEELTA-
-KFLDDDQEAAGFVLTCVAYPKCDVTIETHKEEELTA-
-SFLDDEQIEAGFVLTCVAYPTSDVVIETHKEEDLTA-
-SFLDDEQIEGGWVLTCVAFPTSDVTIETHKEEELTA-
-SFLDDDQIKEGWVLTCVAYPTGDVTIETHKEEELTA-
-SFLDDDQIDEGWVLTCAAYPVSDVTIETHKEEELTA-
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHREEDMV--
-SFLDDEQIGEGFVLTCAAYPTSDVTIETHKEEDIV--
-SFLDDDQIAEGFVLTCAAYPTSDVTIETHKEEELV--
-SFLDDEQMSEGYVLTCVAYPTSDVVIETHKEEAIM--
-SFLDD--------------------------------
-SYLDDGQIADGWVLTCHAYPTSDVVIETHKEEELTGA
-SFLNDNQVADGWVLTCAAYPTSDVVIETHKEDDLL--