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JAL-1805 modified test setup's so the are ran for groups which requires them
[jalview.git] / examples / test.pileup
diff --git a/examples/test.pileup b/examples/test.pileup
deleted file mode 100644 (file)
index d191e4b..0000000
--- a/examples/test.pileup
+++ /dev/null
@@ -1,93 +0,0 @@
-PileUp
-
-   MSF: 157   Type: P    Check:  1935   ..
-
-
- Name: FER_CAPAA/1-97 oo  Len:  157  Check:  5701  Weight:  1.00
- Name: FER_CAPAN/1-144 oo  Len:  157  Check:  8823  Weight:  1.00
- Name: FER1_SOLLC/1-144 oo  Len:  157  Check:  41  Weight:  1.00
- Name: Q93XJ9_SOLTU/1-144 oo  Len:  157  Check:  466  Weight:  1.00
- Name: FER1_PEA/1-149 oo  Len:  157  Check:  5889  Weight:  1.00
- Name: Q7XA98_TRIPR/1-152 oo  Len:  157  Check:  1438  Weight:  1.00
- Name: FER1_MESCR/1-148 oo  Len:  157  Check:  3943  Weight:  1.00
- Name: FER1_SPIOL/1-147 oo  Len:  157  Check:  2139  Weight:  1.00
- Name: FER3_RAPSA/1-96 oo  Len:  157  Check:  7694  Weight:  1.00
- Name: FER1_ARATH/1-148 oo  Len:  157  Check:  6163  Weight:  1.00
- Name: FER_BRANA/1-96 oo  Len:  157  Check:  6628  Weight:  1.00
- Name: FER2_ARATH/1-148 oo  Len:  157  Check:  7866  Weight:  1.00
- Name: Q93Z60_ARATH/1-118 oo  Len:  157  Check:  3003  Weight:  1.00
- Name: FER1_MAIZE/1-150 oo  Len:  157  Check:  4097  Weight:  1.00
- Name: O80429_MAIZE/1-140 oo  Len:  157  Check:  1696  Weight:  1.00
- Name: 1A70|/1-97 oo  Len:  156  Check:  6348  Weight:  1.00
-
-
-//
-
-FER_CAPAA/1-97 ---------- ---------- ---------- ---------- ----------
-FER_CAPAN/1-144 MA------SV SATMISTSFM PRKPAVTSL- KPIPNVGE-- ALFGLKS-A-
-FER1_SOLLC/1-144 MA------SI SGTMISTSFL PRKPAVTSL- KAISNVGE-- ALFGLKS-G-
-Q93XJ9_SOLTU/1-144 MA------SI SGTMISTSFL PRKPVVTSL- KAISNVGE-- ALFGLKS-G-
-FER1_PEA/1-149 MATT---PAL YGTAVSTSFL RTQPMPMSV- TTTKAFSN-- GFLGLKT-SL
-Q7XA98_TRIPR/1-152 MATT---PAL YGTAVSTSFM RRQPVPMSV- ATTTTTKAFP SGFGLKSVST
-FER1_MESCR/1-148 MAAT--TAAL SGATMSTAFA PK--TPPMTA ALPTNVGR-- ALFGLKS-SA
-FER1_SPIOL/1-147 MAAT--TTTM MG--MATTFV PKPQAPPMMA ALPSNTGR-- SLFGLKT-GS
-FER3_RAPSA/1-96 ---------- ---------- ---------- ---------- ----------
-FER1_ARATH/1-148 MAST----AL SSAIVGTSFI RRSPAPISLR SLPSANTQ-- SLFGLKS-GT
-FER_BRANA/1-96 ---------- ---------- ---------- ---------- ----------
-FER2_ARATH/1-148 MAST----AL SSAIVSTSFL RRQQTPISLR SLPFANTQ-- SLFGLKS-ST
-Q93Z60_ARATH/1-118 MAST----AL SSAIVSTSFL RRQQTPISLR SLPFANTQ-- SLFGLKS-ST
-FER1_MAIZE/1-150 MATVLGSPRA PAFFFSSSSL RAAPAPTAV- -ALPAAKV-- GIMGRSA-SS
-O80429_MAIZE/1-140 MAAT------ ---ALSMSIL R---APPPCF SSPLRLRV-- AVAKPLA-AP
-1A70|/1-97   ---------- ---------- ---------- ---------- ----------
-
-FER_CAPAA/1-97 ---------A SYKVKLITPD GPIEFDCPDD VYILDQAEEA GHDLPYSCRA
-FER_CAPAN/1-144 -NGGKVTCMA SYKVKLITPD GPIEFDCPDN VYILDQAEEA GHDLPYSCRA
-FER1_SOLLC/1-144 -RNGRITCMA SYKVKLITPE GPIEFECPDD VYILDQAEEE GHDLPYSCRA
-Q93XJ9_SOLTU/1-144 -RNGRITCMA SYKVKLITPD GPIEFECPDD VYILDQAEEE GHDLPYSCRA
-FER1_PEA/1-149 KRGDLAVAMA SYKVKLVTPD GTQEFECPSD VYILDHAEEV GIDLPYSCRA
-Q7XA98_TRIPR/1-152 KRGDLAVAMA TYKVKLITPE GPQEFDCPDD VYILDHAEEV GIELPYSCRA
-FER1_MESCR/1-148 SR-GRVTAMA AYKVTLVTPE GKQELECPDD VYILDAAEEA GIDLPYSCRA
-FER1_SPIOL/1-147 R--GGRMTMA AYKVTLVTPT GNVEFQCPDD VYILDAAEEE GIDLPYSCRA
-FER3_RAPSA/1-96 ---------A TYKVKFITPE GEQEVECDDD VYVLDAAEEA GIDLPYSCRA
-FER1_ARATH/1-148 ARGGRVTAMA TYKVKFITPE GELEVECDDD VYVLDAAEEA GIDLPYSCRA
-FER_BRANA/1-96 ---------A TYKVKFITPE GEQEVECDDD VYVLDAAEEA GIDLPYSCRA
-FER2_ARATH/1-148 ARGGRVTAMA TYKVKFITPE GEQEVECEED VYVLDAAEEA GLDLPYSCRA
-Q93Z60_ARATH/1-118 ARGGRVTAMA TYKVKFITPE GEQEVECEED VYVLDAAEEA GLDLPYSCRA
-FER1_MAIZE/1-150 RR--RLRAQA TYNVKLITPE GEVELQVPDD VYILDQAEED GIDLPYSCRA
-O80429_MAIZE/1-140 MRRQLLRAQA TYNVKLITPE GEVELQVPDD VYILDFAEEE GIDLPFSCRA
-1A70|/1-97   ---------A AYKVTLVTPT GNVEFQCPDD VYILDAAEEE GIDLPYSCRA
-
-FER_CAPAA/1-97 GSCSSCAGKI AGGAVDQTDG NFLDDDQLEE GWVLTCVAYP QSDVTIETHK
-FER_CAPAN/1-144 GSCSSCAGKI AGGAVDQTDG NFLDDDQLEE GWVLTCVAYP QSDVTIETHK
-FER1_SOLLC/1-144 GSCSSCAGKV TAGSVDQSDG NFLDEDQEAA GFVLTCVAYP KGDVTIETHK
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-Q7XA98_TRIPR/1-152 GSCSSCAGKV VNGNVNQEDG SFLDDEQIEG GWVLTCVAFP TSDVTIETHK
-FER1_MESCR/1-148 GSCSSCAGKV TSGSVNQDDG SFLDDDQIKE GWVLTCVAYP TGDVTIETHK
-FER1_SPIOL/1-147 GSCSSCAGKL KTGSLNQDDQ SFLDDDQIDE GWVLTCAAYP VSDVTIETHK
-FER3_RAPSA/1-96 GSCSSCAGKV VSGSVDQSDQ SFLDDDQIAE GFVLTCAAYP TSDVTIETHR
-FER1_ARATH/1-148 GSCSSCAGKV VSGSVDQSDQ SFLDDEQIGE GFVLTCAAYP TSDVTIETHK
-FER_BRANA/1-96 GSCSSCAGKV VSGFVDQSDE SFLDDDQIAE GFVLTCAAYP TSDVTIETHK
-FER2_ARATH/1-148 GSCSSCAGKV VSGSIDQSDQ SFLDDEQMSE GYVLTCVAYP TSDVVIETHK
-Q93Z60_ARATH/1-118 GSCSSCAGKV VSGSIDQSDQ SFLDD----- ---------- ----------
-FER1_MAIZE/1-150 GSCSSCAGKV VSGSVDQSDQ SYLDDGQIAD GWVLTCHAYP TSDVVIETHK
-O80429_MAIZE/1-140 GSCSSCAGKV VSGSVDQSDQ SFLNDNQVAD GWVLTCAAYP TSDVVIETHK
-1A70|/1-97   GSCSSCAGKL KTGSLNQDDQ SFLDDDQIDE GWVLTCAAYP VSDVTIETHK
-
-FER_CAPAA/1-97 EAELVG-
-FER_CAPAN/1-144 EAELVG-
-FER1_SOLLC/1-144 EEELTA-
-Q93XJ9_SOLTU/1-144 EEELTA-
-FER1_PEA/1-149 EEDLTA-
-Q7XA98_TRIPR/1-152 EEELTA-
-FER1_MESCR/1-148 EEELTA-
-FER1_SPIOL/1-147 EEELTA-
-FER3_RAPSA/1-96 EEDMV--
-FER1_ARATH/1-148 EEDIV--
-FER_BRANA/1-96 EEELV--
-FER2_ARATH/1-148 EEAIM--
-Q93Z60_ARATH/1-118 -------
-FER1_MAIZE/1-150 EEELTGA
-O80429_MAIZE/1-140 EDDLL--
-1A70|/1-97   KEELTA
-