From 7a263ce52ef061dd2164d163fae359a2f480ca01 Mon Sep 17 00:00:00 2001 From: Ben Soares Date: Mon, 3 Apr 2023 19:22:06 +0100 Subject: [PATCH] JAL-629 Removed --headless to fix CommandsTest --- test/jalview/bin/CommandsTest.java | 3 +- .../bin/argparser/testfiles/dir1/argfile.txt | 1 + .../bin/argparser/testfiles/dir2/argfile.txt | 1 + test/jalview/bin/test_uniref50_out.html | 384 -------------------- 4 files changed, 3 insertions(+), 386 deletions(-) delete mode 100644 test/jalview/bin/test_uniref50_out.html diff --git a/test/jalview/bin/CommandsTest.java b/test/jalview/bin/CommandsTest.java index 91e3205..2597e2a 100644 --- a/test/jalview/bin/CommandsTest.java +++ b/test/jalview/bin/CommandsTest.java @@ -112,8 +112,7 @@ public class CommandsTest public void argFilesGlobAndSubstitutionsTest() throws IOException { cleanupArgfilesImages(); - String cmdLine = "--headless --argfile=" + testfiles - + "/dir*/argfile.txt"; + String cmdLine = "--argfile=" + testfiles + "/dir*/argfile.txt"; String[] args = cmdLine.split("\\s+"); Jalview.main(args); Commands cmds = Jalview.getInstance().getCommands(); diff --git a/test/jalview/bin/argparser/testfiles/dir1/argfile.txt b/test/jalview/bin/argparser/testfiles/dir1/argfile.txt index 961c1d2..cd6b31b 100644 --- a/test/jalview/bin/argparser/testfiles/dir1/argfile.txt +++ b/test/jalview/bin/argparser/testfiles/dir1/argfile.txt @@ -3,3 +3,4 @@ --open={argfiledirname}/*.fa --colour=gecos:flower --image={argfiledirname}/{basename}.png +--close diff --git a/test/jalview/bin/argparser/testfiles/dir2/argfile.txt b/test/jalview/bin/argparser/testfiles/dir2/argfile.txt index 961c1d2..cd6b31b 100644 --- a/test/jalview/bin/argparser/testfiles/dir2/argfile.txt +++ b/test/jalview/bin/argparser/testfiles/dir2/argfile.txt @@ -3,3 +3,4 @@ --open={argfiledirname}/*.fa --colour=gecos:flower --image={argfiledirname}/{basename}.png +--close diff --git a/test/jalview/bin/test_uniref50_out.html b/test/jalview/bin/test_uniref50_out.html deleted file mode 100644 index 03b47e5..0000000 --- a/test/jalview/bin/test_uniref50_out.html +++ /dev/null @@ -1,384 +0,0 @@ - -  
  -
-
- - - - -FER_CAPAA/1-97FER_CAPAN/1-144FER1_SOLLC/1-144Q93XJ9_SOLTU/1-144FER1_PEA/1-149Q7XA98_TRIPR/1-152FER1_MESCR/1-148FER1_SPIOL/1-147FER3_RAPSA/1-96FER2_ARATH/1-148FER_BRANA/1-96FER1_ARATH/1-148Q93Z60_ARATH/1-118FER1_MAIZE/1-150O80429_MAIZE/1-140ConservationQualityConsensus -
- - - -
- - - -102030405060708090100110120130140150-----------------------------------------------------------ASYKVKLITPDGPIEFDCPDDVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDGNFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-MA------SVSATMISTSFMPRKPAVTSL-KPIPNVGE--ALFGLKS-A--NGGKVTCMASYKVKLITPDGPIEFDCPDNVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDGNFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-MA------SISGTMISTSFLPRKPAVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMASYKVKLITPEGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGSVDQSDGNFLDEDQEAAGFVLTCVAYPKGDVTIETHKEEELTA-MA------SISGTMISTSFLPRKPVVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMASYKVKLITPDGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGTVDQSDGKFLDDDQEAAGFVLTCVAYPKCDVTIETHKEEELTA-MATT---PALYGTAVSTSFLRTQPMPMSV-TTTKAFSN--GFLGLKT-SLKRGDLAVAMASYKVKLVTPDGTQEFECPSDVYILDHAEEVGIDLPYSCRAGSCSSCAGKVVGGEVDQSDGSFLDDEQIEAGFVLTCVAYPTSDVVIETHKEEDLTA-MATT---PALYGTAVSTSFMRRQPVPMSV-ATTTTTKAFPSGFGLKSVSTKRGDLAVAMATYKVKLITPEGPQEFDCPDDVYILDHAEEVGIELPYSCRAGSCSSCAGKVVNGNVNQEDGSFLDDEQIEGGWVLTCVAFPTSDVTIETHKEEELTA-MAAT--TAALSGATMSTAFAPK--TPPMTAALPTNVGR--ALFGLKS-SASR-GRVTAMAAYKVTLVTPEGKQELECPDDVYILDAAEEAGIDLPYSCRAGSCSSCAGKVTSGSVNQDDGSFLDDDQIKEGWVLTCVAYPTGDVTIETHKEEELTA-MAAT--TTTMMG--MATTFVPKPQAPPMMAALPSNTGR--SLFGLKT-GSR--GGRMTMAAYKVTLVTPTGNVEFQCPDDVYILDAAEEEGIDLPYSCRAGSCSSCAGKLKTGSLNQDDQSFLDDDQIDEGWVLTCAAYPVSDVTIETHKEEELTA------------------------------------------------------------ATYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQSFLDDDQIAEGFVLTCAAYPTSDVTIETHREEDMV--MAST----ALSSAIVGTSFIRRSPAPISLRSLPSANTQ--SLFGLKS-GTARGGRVTAMATYKVKFITPEGELEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQSFLDDEQIGEGFVLTCAAYPTSDVTIETHKEEDIV-------------------------------------------------------------ATYKVKFITPEGEQEVECDDDVYVLDAAEEAGIDLPYSCRAGSCSSCAGKVVSGFVDQSDESFLDDDQIAEGFVLTCAAYPTSDVTIETHKEEELV--MAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMATYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQSFLDDEQMSEGYVLTCVAYPTSDVVIETHKEEAIM--MAST----ALSSAIVSTSFLRRQQTPISLRSLPFANTQ--SLFGLKS-STARGGRVTAMATYKVKFITPEGEQEVECEEDVYVLDAAEEAGLDLPYSCRAGSCSSCAGKVVSGSIDQSDQSFLDD--------------------------------MATVLGSPRAPAFFFSSSSLRAAPAPTAV--ALPAAKV--GIMGRSA-SSRR--RLRAQATYNVKLITPEGEVELQVPDDVYILDQAEEDGIDLPYSCRAGSCSSCAGKVVSGSVDQSDQSYLDDGQIADGWVLTCHAYPTSDVVIETHKEEELTGAMAAT---------ALSMSILR---APPPCFSSPLRLRV--AVAKPLA-APMRRQLLRAQATYNVKLITPEGEVELQVPDDVYILDFAEEEGIDLPFSCRAGSCSSCAGKVVSGSVDQSDQSFLNDNQVADGWVLTCAAYPTSDVVIETHKEDDLL--13------------1201010---11001--0000000--2111001-2-----00020*7*6*789**6*36*779568**9**3***3*59**9*************947*398*5*459*89010003232321322014322335330011-- MA+TLGTPALSGT+VSTSFLRRQPAPTSLRSLPS+VG+FP+LFGLKSVSTARGGRVTAMATYKVKLITPEGEQEFECPDDVYILDAAEEAGIDLPYSCRAGSCSSCAGKVVSGSVDQSD+SFLDDDQIAEGWVLTCVAYPTSDVTIETHKEEELTAA -
- - - - \ No newline at end of file -- 1.7.10.2