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Changeset 11:579acb6fb8a8 (2013-04-29)

Previous changeset 10:e73da4ffaa6a (2013-04-29) Next changeset 12:cd467dd9e2ff (2013-04-29)

Commit message:
Uploaded v0.0.20, preview 2. Uses a smaller test case than last upload.

modified:
tools/ncbi_blast_plus/ncbi_tblastx_wrapper.xml

added:
test-data/tblastx_rhodopsin_vs_three_human.tabular

removed:
test-data/tblastx_rhodopsin_vs_three_human_ext.tabular

diff -r e73da4ffaa6a -r 579acb6fb8a8 test-data/tblastx_rhodopsin_vs_three_human.tabular
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/tblastx_rhodopsin_vs_three_human.tabular Mon Apr 29 09:27:48 2013 -0400

b'@@ -0,0 +1,117 @@\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t97.39\t230\t6\t0\t1\t690\t88\t777\t0.0\t 559\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.12\t102\t6\t0\t742\t1047\t829\t1134\t0.0\t 236\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t91.22\t148\t13\t0\t1046\t603\t1133\t690\t0.0\t 308\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.32\t88\t5\t0\t566\t303\t653\t390\t0.0\t 207\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t96.34\t82\t3\t0\t248\t3\t335\t90\t0.0\t 182\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t83.33\t204\t34\t0\t18\t629\t105\t716\t4e-158\t 404\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t75.28\t89\t22\t0\t780\t1046\t867\t1133\t4e-158\t 161\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.28\t203\t38\t0\t609\t1\t696\t88\t5e-153\t 360\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t80.60\t67\t13\t0\t916\t716\t1003\t803\t5e-153\t 135\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t70.27\t37\t11\t0\t1047\t937\t1134\t1024\t5e-153\t64.2\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t100.00\t7\t0\t0\t646\t626\t733\t713\t5e-153\t24.0\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.23\t65\t7\t0\t460\t266\t547\t353\t4e-105\t 167\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t89.58\t48\t5\t0\t184\t41\t271\t128\t4e-105\t 104\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t77.78\t45\t10\t0\t882\t748\t969\t835\t4e-105\t93.9\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t67.86\t28\t9\t0\t1045\t962\t1132\t1049\t4e-105\t51.9\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t59.09\t22\t9\t0\t586\t521\t673\t608\t4e-105\t33.1\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.40\t86\t16\t0\t296\t553\t383\t640\t2e-87\t 185\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t84.38\t32\t5\t0\t11\t106\t98\t193\t2e-87\t74.8\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t71.43\t35\t10\t0\t941\t1045\t1028\t1132\t2e-87\t61.6\n+gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.44\t18\t1\t0\t794\t847\t881\t934\t2e-87\t50.1\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t83.61\t238\t39\t0\t18\t731\t64\t777\t0.0\t 507\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t82.35\t85\t15\t0\t783\t1037\t829\t1083\t0.0\t 188\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t70.96\t303\t88\t0\t925\t17\t971\t63\t2e-130\t 435\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t72.22\t18\t5\t0\t1027\t974\t1073\t1020\t2e-130\t35.0\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t55.32\t188\t84\t0\t605\t42\t651\t88\t7e-89\t 245\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t61.11\t72\t28\t0\t1037\t822\t1083\t868\t7e-89\t91.3\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t49.02\t204\t104\t0\t29\t640\t75\t686\t4e-78\t 197\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t66.04\t53\t18\t0\t860\t1018\t906\t1064\t4e-78\t85.8\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t44.44\t27\t15\t0\t689\t769\t735\t815\t4e-78\t32.2\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t47.47\t198\t104\t0\t633\t40\t679\t86\t4e-65\t 177\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t68.09\t47\t15\t0\t1017\t877\t1063\t923\t4e-65\t80.3\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t57.89\t114\t48\t0\t265\t606\t311\t652\t3e-46\t 137\n+gi|2734705|gb|U59921.1|BBU59921\tENA|BC112106|BC112106.1\t46.30\t54\t29\t0\t19\t180\t65\t226\t3e-46\t52.4\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t96.40\t111\t4\t0\t1\t333\t118\t450\t0.0\t 264\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t92.31\t65\t5\t0\t3174\t3368\t829\t1023\t0.0\t 151\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t96.43\t56\t2\t0\t2855\t3022\t616\t783\t0.0\t 141\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t93.22\t59\t4\t0\t1404\t1580\t442\t618\t0.0\t 138\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t92.00\t25\t2\t0\t4222\t4296\t1021\t1095\t0.0\t64.3\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t88.89\t9\t1\t0\t3128\t3154\t783\t809\t0.0\t22.6\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t78.38\t111\t24\t0\t333\t1\t450\t118\t7e-171\t 212\n+gi|283855845|gb|GQ290303.1|\tENA|BC112106|BC112106.1\t88.75\t80\t9\t0\t3367\t3128\t1022\t783\t7e-171\t 1'..b'06|BC112106.1\t77.43\t319\t72\t0\t3\t959\t120\t1076\t4e-174\t 593\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t79.07\t129\t27\t0\t558\t172\t675\t289\t2e-133\t 248\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t76.83\t82\t19\t0\t963\t718\t1080\t835\t2e-133\t 159\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t84.09\t44\t7\t0\t133\t2\t250\t119\t2e-133\t97.3\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t73.08\t78\t21\t0\t433\t200\t550\t317\t6e-102\t 145\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t70.15\t67\t20\t0\t799\t599\t916\t716\t6e-102\t 106\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t80.49\t41\t8\t0\t123\t1\t240\t118\t6e-102\t84.5\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t77.78\t27\t6\t0\t553\t473\t670\t590\t6e-102\t51.9\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t71.43\t14\t4\t0\t889\t848\t1006\t965\t6e-102\t32.7\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t81.82\t11\t2\t0\t958\t926\t1075\t1043\t6e-102\t28.6\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t84.85\t33\t5\t0\t239\t337\t356\t454\t4e-48\t72.5\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t86.67\t30\t4\t0\t2\t91\t119\t208\t4e-48\t71.2\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t81.40\t43\t8\t0\t404\t532\t521\t649\t4e-48\t47.3\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t88.89\t18\t2\t0\t764\t817\t881\t934\t4e-48\t44.6\n+gi|283855822|gb|GQ290312.1|\tENA|BC112106|BC112106.1\t87.50\t8\t1\t0\t935\t958\t1052\t1075\t4e-48\t21.7\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t93.91\t230\t14\t0\t1\t690\t88\t777\t0.0\t 538\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t91.18\t102\t9\t0\t742\t1047\t829\t1134\t0.0\t 233\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t88.83\t188\t21\t0\t566\t3\t653\t90\t0.0\t 394\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t84.06\t138\t22\t0\t1046\t633\t1133\t720\t0.0\t 260\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.11\t228\t75\t0\t684\t1\t771\t88\t7e-132\t 333\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t67.27\t110\t36\t0\t1045\t716\t1132\t803\t7e-132\t 141\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t70.20\t151\t45\t0\t3\t455\t90\t542\t1e-128\t 236\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t64.04\t89\t32\t0\t780\t1046\t867\t1133\t1e-128\t 136\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.22\t74\t25\t0\t510\t731\t597\t818\t1e-128\t 111\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.04\t106\t36\t0\t242\t559\t329\t646\t2e-58\t 161\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t85.71\t21\t3\t0\t92\t154\t179\t241\t2e-58\t53.8\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t73.68\t19\t5\t0\t791\t847\t878\t934\t2e-58\t39.1\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t61.29\t62\t24\t0\t424\t239\t511\t326\t4e-55\t81.3\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t74.36\t39\t10\t0\t133\t17\t220\t104\t4e-55\t69.8\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t65.71\t35\t12\t0\t882\t778\t969\t865\t4e-55\t56.3\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t58.14\t43\t18\t0\t649\t521\t736\t608\t4e-55\t50.6\n+gi|18148870|dbj|AB062417.1|\tENA|BC112106|BC112106.1\t66.67\t12\t4\t0\t972\t937\t1059\t1024\t4e-55\t23.9\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t82.13\t235\t42\t0\t11\t715\t76\t780\t0.0\t 498\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t78.31\t83\t18\t0\t770\t1018\t835\t1083\t0.0\t 177\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.29\t332\t92\t0\t1017\t22\t1082\t87\t1e-150\t 516\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t48.30\t147\t76\t0\t712\t272\t777\t337\t2e-98\t 169\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t54.17\t72\t33\t0\t1030\t815\t1095\t880\t2e-98\t 103\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t47.83\t69\t36\t0\t220\t14\t285\t79\t2e-98\t83.5\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.00\t25\t7\t0\t782\t708\t847\t773\t2e-98\t45.1\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.00\t75\t33\t0\t532\t756\t597\t821\t5e-65\t87.7\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t39.42\t104\t63\t0\t19\t330\t84\t395\t5e-65\t86.8\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.90\t58\t25\t0\t829\t1002\t894\t1067\t5e-65\t81.3\n+gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t50.00\t30\t15\t0\t388\t477\t453\t542\t5e-65\t33.6\n'

diff -r e73da4ffaa6a -r 579acb6fb8a8 test-data/tblastx_rhodopsin_vs_three_human_ext.tabular
--- a/test-data/tblastx_rhodopsin_vs_three_human_ext.tabular Mon Apr 29 09:19:50 2013 -0400
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,117 +0,0 @@\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t97.39\t230\t6\t0\t1\t690\t88\t777\t0.0\t 559\tENA|BC112106|BC112106.1\t1215\t224\t227\t0\t98.70\t1\t1\tMNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQLVFTV\tMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTV\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.12\t102\t6\t0\t742\t1047\t829\t1134\t0.0\t 236\tENA|BC112106|BC112106.1\t510\t96\t100\t0\t98.04\t1\t1\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSIYNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA*\tKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA*\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t91.22\t148\t13\t0\t1046\t603\t1133\t690\t0.0\t 308\tENA|BC112106|BC112106.1\t667\t135\t138\t0\t93.24\t-2\t-3\t*AGATWLVSVLEPVVEASSSPSGFLPQQRVVSMQFRNCLFIMM*MTGL*MEEDFAKNAGSVMKMGPKLDPWWVKM*NATLA*GTQQIRKAMTMMMTMRVTSFSAFWVVADSCCWAAASLTVKTSCP*QKKMTIMGMVKWTTNM*MTKD\t*AGATWLVSVLDTVAEASSSPSGFLPQQMVVSMQFRNCLFIMI*MTGL*MAALLAKNAGMVMKMGPKLEPWWVKM*NATLA*GTQQIRKAMTMMMTMRVTSFSAFCVVADSCCWAAASLTVKTSCP*QKKMIIMGMVKWTTNM*MTKD\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t94.32\t88\t5\t0\t566\t303\t653\t390\t0.0\t 207\tENA|BC112106|BC112106.1\t447\t83\t84\t0\t95.45\t-2\t-3\tIPHEHCMPSGMYLDQPTRGGAAQASAMTQVKATPIMAWFSPKRKLLMGLHTTTYRSMARTTKDHRAISPPSVAKKPSKLHPVGPKTKY\tIPHEHCRPSGMYLDQPASGGAAQASAMTQVKATPMMAWFSPKRKLLMGLHTTTYRSMARTTKDHRAISPPRVAKKPSKLHPVGPKTKY\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t96.34\t82\t3\t0\t248\t3\t335\t90\t0.0\t 182\tENA|BC112106|BC112106.1\t393\t79\t80\t0\t97.56\t-2\t-3\tSATARLSRM*LRGVRSFLCWTVT*SVRKLMGKPSTMSRNM*AASMENCHGSAR*YCGYSKGLRTTPVLLEKGT*KFGPSVPF\tSATARLSRM*LRGVRSFLCWTVT*SVRKLMGKPSTISRNM*AASMENCHGSAR*YCGYSKGLRTTPVALEKGT*KLGPSVPF\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t83.33\t204\t34\t0\t18\t629\t105\t716\t4e-158\t 404\tENA|BC112106|BC112106.1\t877\t170\t174\t0\t85.29\t3\t3\tPELLRALLQQNGCGTQPLRVPTVLPG*AMAVLHAGRLHVPAHRAWLPHQLPHALRHGPAQEAAHASQLHPAQPGRG*PLHGLRWLHHHPLHLSAWILCLWAHRMQFGGLLCHTGR*NCPVVFGGPGH*AVRGGV*AHEQLPLWGEPCHNGRRFHLGHGTGLRCTPPRWLVQVHP*RHAVFMRDRLLHTQARSQQRVLCHLHVRG\tP*LLRALLQCDGCGTQPLRVPTVLPG*AMAVLHAGRLHVSADRAGLPHQLPHALRHRPAQEAAHASQLHPAQPSRG*PLHGPRWLHQHPLHLSAWILRLRAHRMQFGGLLCHPGR*NCPVVLGGPGHRAVRGGV*AHEQLPLRGEPCHHGRCLHLGHGAGLRRTPTRRLVQVHPRGPAVLVWNRLLHAQAGGQQRVFCHLHVRG\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t75.28\t89\t22\t0\t780\t1046\t867\t1133\t4e-158\t 161\tENA|BC112106|BC112106.1\t346\t67\t72\t0\t80.90\t3\t3\tFPDLLGALRQRGILHLHPPGVQLWPHLHDTPGVLRKVLLHLQPCHLHHDEQAVPELHAHYPLLWQEPTG**RGFHNRFQDGDQPGGTGL\tFPDLLGALRQRGILHLHPPGLQLRSHLHDHPSVLCQERRHLQPCHLYHDEQAVPELHAHHHLLRQEPTG*R*GLCYRVQDGDEPGGPGL\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t81.28\t203\t38\t0\t609\t1\t696\t88\t5e-153\t 360\tENA|BC112106|BC112106.1\t782\t165\t175\t0\t86.21\t-1\t-2\tKGLVVDFWLECVVVDPA*TLHAFRDVPGPTNEGGCSAGQCHDPGESDAHYGMVLPKAEVAHGLTHHHVPLNGQDHQRPQGNFTAQCGKEALQIASCGPKDKVSMQRGVEGGGEATEDHEEVSHGQVEQDVVERRAQLLVLDRDVEREEVDGEAKHDEQEHVGGQHGELPWLSQVVLWVLEGAAYHTRFVGEGHVEVRALRPVH\tKRLVVDLRLERVVVDSTRALQALGDVPGPAGEWGCGAGQRHDPGEGNAHDGMVLPEAEVAHGLTHHHVPLDGQDHQGPQGNFTAQGGKEALQIASCGPEDEVSMQRGVEGAGEAT*DHEEVSHG*VEQDVVERRAQLLVLDGDVEREEVDGEAQHDQQKHVGGQHGELPWLSQVVLWVLEGAAYHTRRIGEGHVEVRAFCAIH\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t80.60\t67\t13\t0\t916\t716\t1003\t803\t5e-153\t 135\tENA|BC112106|BC112106.1\t290\t54\t60\t0\t89.55\t-3\t-1\tR*QGCRWRRTLRRTPGVS*RWGQSWTPGG*RCRMPRWRRAPNRSGKQ*P***PCE*PPSQPSGWWLT\tR*QGCRWRRSWQRTLGWS*RWDRSWSPGG*RCRMPRWRRAPSRSGKR*P***PCG*PPSLPSVWWLT\t1047\t1213\n-gi|57163782|ref|NM_001009242.1|\tENA|BC112106|BC112106.1\t70.27\t37\t11\t0\t1047\t937\t1134\t1024\t5e-153\t64.2\tENA|BC112106|BC112106.1\t134\t26\t29\t0\t7'..b'TEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIAGFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMHGYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGESHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINNESFVIYMFTCHFSIPLAVISFCYGRLVCTVK\tRATAMNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQLVFTVK\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t78.31\t83\t18\t0\t770\t1018\t835\t1083\t0.0\t 177\tENA|BC112106|BC112106.1\t382\t65\t79\t0\t95.18\t2\t1\tVTRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSALYNPMIYICMNKQFRHCMITTLCCGKNPFEEED\tVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMNKQFRNCMLTTICCGKNPLGDDE\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.29\t332\t92\t0\t1017\t22\t1082\t87\t1e-150\t 516\tENA|BC112106|BC112106.1\t1120\t240\t256\t0\t77.11\t-1\t-3\tSSSSKGFFPQQRVVIMQWRNCLFMQM*IMGL*RAELLAKKDGMVMKMGPKVLPWWVKMYQATLA*GTQQTRKEMTMMTTMRVTSRSALWVVSDSCCWAAASLTVHTSRP*QKEMTASGMEKWQVNM*ITKDSLLIPGARV**SIPHEHCRPSGMYRDQPKRGGRAQANAMVQVTMTPMMAWLSPKRKLVTGLQTTIHLSMARTTRHQRAISPPRVAKNPSMLQPVGPKTK*PCMEVYIVVVNPPNTMKRSATARFSRM*FSGVLSFLCSMVTYRVRKLMGNPAIIRKNM*ADRAEKAHGSAR*YCGYSNGLLTTPVAFDMGM*KLGPSVPFM\tSSSPSGFLPQQMVVSMQFRNCLFIMI*MTGL*MAALLAKNAGMVMKMGPKLEPWWVKM*NATLA*GTQQIRKAMTMMMTMRVTSFSAFCVVADSCCWAAASLTVKTSCP*QKKMIIMGMVKWTTNM*MTKDSLLTSGLSV**SIPHEHCRPSGMYLDQPASGGAAQASAMTQVKATPMMAWFSPKRKLLMGLHTTTYRSMARTTKDHRAISPPRVAKKPSKLHPVGPKTKYPCREV*RVLVKPPRTMKRSATARLSRM*LRGVRSFLCWTVT*SVRKLMGKPSTISRNM*AASMENCHGSAR*YCGYSKGLRTTPVALEKGT*KLGPSVPFM\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t48.30\t147\t76\t0\t712\t272\t777\t337\t2e-98\t 169\tENA|BC112106|BC112106.1\t363\t71\t92\t0\t62.59\t-3\t-2\tDGAHQSAVAERDDGEWDGEVAGKHVDHKGLIVDPRRPGIVVDPARALQTFRNVPRPAEERGEGTGQCHGPGHHDTHDGMALTEAEIGHWLADDHPPFNGQDNEAPEGNLAAEGGEEPFDVAAGGAEDKVAVHGGVHRGGESAKHHEE\tDGEDELPIAEKDDNHGDGEVDHEHVDDKRLVVDLRLERVVVDSTRALQALGDVPGPAGEWGCGAGQRHDPGEGNAHDGMVLPEAEVAHGLTHHHVPLDGQDHQGPQGNFTAQGGKEALQIASCGPEDEVSMQRGVEGAGEAT*DHEE\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t54.17\t72\t33\t0\t1030\t815\t1095\t880\t2e-98\t 103\tENA|BC112106|BC112106.1\t220\t39\t53\t0\t73.61\t-3\t-2\tGGRSILLLEGVLPTAEGGDHAMAELLVHADVDHGVVEG*TLGKEGWNGHEDGPKSASLVGKDVPGHTGIGHP\tGSRGLIVTQWVLAAADGGEHAVPELLVHHDIDDRVVDGGALGKERWDGHEDGTEVGALVGEDVECHAGVGHP\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t47.83\t69\t36\t0\t220\t14\t285\t79\t2e-98\t83.5\tENA|BC112106|BC112106.1\t176\t33\t47\t0\t68.12\t-3\t-2\tLMFDGDIQGEEVDGESGDNQEEHVGRQS*ESPWFCKVVLRVFKWTPHYTSGV*HGDVEVRSLSAVHGCG\tLVLDGDVEREEVDGEAQHDQQKHVGGQHGELPWLSQVVLWVLEGAAYHTRRIGEGHVEVRAFCAIHGCG\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t72.00\t25\t7\t0\t782\t708\t847\t773\t2e-98\t45.1\tENA|BC112106|BC112106.1\t92\t18\t19\t0\t76.00\t-2\t-1\tPCG*PPAQPSGWSRTPVAGQRPL*R\tPCG*PPSLPSVWWLTPAAGQRPP*R\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.00\t75\t33\t0\t532\t756\t597\t821\t5e-65\t87.7\tENA|BC112106|BC112106.1\t185\t42\t46\t0\t61.33\t1\t3\tPSLRLVSVHSGRSAVLVRDRLLYPGAWDQQ*VLCDLHVYLPLLHPTRRHLFLLRPTGVHRQRGRCPATGVRDHPE\tPTRRLVQVHPRGPAVLVWNRLLHAQAGGQQRVFCHLHVRGPLHHPHDYHLFLLWAARLHRQGGRCPAAGVSHHTE\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t39.42\t104\t63\t0\t19\t330\t84\t395\t5e-65\t86.8\tENA|BC112106|BC112106.1\t183\t41\t56\t0\t53.85\t1\t3\tNHERH*GT*LLHPHVKRHWCSEESI*IPAVLPCRTMGFLSSVCLHVLPDYRRIPHQLPHPVCHHRT*ETEDPTELHSAEPGRGRPLHGVWRIHHHDVHLHARLL\tSHEWHRRP*LLRALLQCDGCGTQPLRVPTVLPG*AMAVLHAGRLHVSADRAGLPHQLPHALRHRPAQEAAHASQLHPAQPSRG*PLHGPRWLHQHPLHLSAWIL\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t56.90\t58\t25\t0\t829\t1002\t894\t1067\t5e-65\t81.3\tENA|BC112106|BC112106.1\t171\t33\t40\t0\t68.97\t1\t3\tQCGLVHLYPPGKHFWAHLHDHSILLCQEFSPLQPHDLHLHEQAVPPLHDHHPLLWEEP\tQRGILHLHPPGLQLRSHLHDHPSVLCQERRHLQPCHLYHDEQAVPELHAHHHLLRQEP\t1344\t1213\n-gi|12583664|dbj|AB043817.1|\tENA|BC112106|BC112106.1\t50.00\t30\t15\t0\t388\t477\t453\t542\t5e-65\t33.6\tENA|BC112106|BC112106.1\t67\t15\t19\t0\t63.33\t1\t3\tDCPLVPRCPGH*KVDGRLQASDQFPLR*EP\tNCPVVLGGPGHRAVRGGV*AHEQLPLRGEP\t1344\t1213\n'

diff -r e73da4ffaa6a -r 579acb6fb8a8 tools/ncbi_blast_plus/ncbi_tblastx_wrapper.xml
--- a/tools/ncbi_blast_plus/ncbi_tblastx_wrapper.xml Mon Apr 29 09:19:50 2013 -0400
+++ b/tools/ncbi_blast_plus/ncbi_tblastx_wrapper.xml Mon Apr 29 09:27:48 2013 -0400

@@ -197,9 +197,9 @@
             <param name="subject" value="three_human_mRNA.fasta" ftype="fasta" />
             <param name="database" value="" />
             <param name="evalue_cutoff" value="1e-40" />
-            <param name="out_format" value="ext" />
+            <param name="out_format" value="6" />
             <param name="adv_opts_selector" value="basic" />
-            <output name="output1" file="tblastx_rhodopsin_vs_three_human_ext.tabular" ftype="tabular" />
+            <output name="output1" file="tblastx_rhodopsin_vs_three_human.tabular" ftype="tabular" />
         </test>
     </tests>
     <help>