From 14c24581799e3ca76a7b51dd194f45e6ba3ccd1c Mon Sep 17 00:00:00 2001 From: martinahansen Date: Fri, 11 Feb 2011 11:16:51 +0000 Subject: [PATCH] updated tests for read_sff git-svn-id: http://biopieces.googlecode.com/svn/trunk@1270 74ccb610-7750-0410-82ae-013aeee3265d --- bp_test/out/read_sff.out.1 | 60 +++++++++++++++++++++++++------------- bp_test/out/read_sff.out.2 | 6 ++-- bp_test/out/read_sff.out.3 | 6 ++-- bp_test/out/read_sff.out.4 | 6 ++-- 4 files changed, 52 insertions(+), 26 deletions(-) diff --git a/bp_test/out/read_sff.out.1 b/bp_test/out/read_sff.out.1 index 299cfe3..ed88d7c 100644 --- a/bp_test/out/read_sff.out.1 +++ b/bp_test/out/read_sff.out.1 @@ -3,88 +3,108 @@ SEQ: TCAGTCATATTTTTTAGAAACATGTTTGTTTGGACTCATTAATTCATGATTAAAATCACCATCATTCGTTATCAA SEQ_LEN: 279 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 277 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: aaa`[[[_[NNNNNNTUP[[__`abbcccddddeeeeeeedddcdcccc``bbbbaaaba_`````bbbbba````____\\\\``_aabbbbbbbba````_WVV\\bbbb``\\`^_bXbbb_`_``bbbbbaaabbb___aabbaaa[[UUUbbbZZZZZabbbbbcaa[[UUU[[[[aabbbac____aPPNNNNPP]PPPWWabaaaabbbbbbbaaabbbbbaaabbbXXX__XXXXXXXXXXUYYUUUY[UUUYUUUUYXXMMMMRKMMMMM +X_POS: 1426 +Y_POS: 1923 --- SEQ_NAME: FQIBXOY01AV4UR SEQ: TCAGCTTGAGCAAATTCTTTATCTTTAAAATTAAACATTTTGTTGAAATTACTGTATCTTTAAAACTTAGATTCAATCGCTTCTTTTATTCTCTTCTGATGACACTCCTACTTGATTCGCAATAACTCAATCCAAACGACCAACCAATGTCAGCTAATTCATCAAGTTGTACGTCTAACGGCTTACCTGGTTTCTTCTTCCAGTTCTTGAACGTTTCCTAATGTGTTAAACCAACTTCTAAAGAAATTCAACCACATACGCAATCTTGCTATCTCGTAAATTTAAGTTG SEQ_LEN: 289 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 69 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: ```````````UUU\\`[[[]Wa]XXMMMMKKIIIRKMMMMRIIYY[[QQNSQ[[^^\]]][[XXRNNMXYZ\ZZZ[[XWXX[[[\[^JJRW\\WVVVV\\ZUUUUUUOOOMMMMVZSSRSSPPPPYXXXWVVWMMMSKMMMMMMMMMSVVVXXXSUOOOO\\UUUSOOOUUWWURSSUSMMMMMRRMMMUUMLIIRPTRRLLLLOOSRRRWWUUUOOMOOOSTTTTQQQKKIIKKKQKKKKKKMMKKKKKKKKKRUUUUUUVVVVVUTTUUURRPOKKKMMMKHKHHR +X_POS: 248 +Y_POS: 3585 --- SEQ_NAME: FQIBXOY01CU7IT SEQ: TCAGTTCGTAAAAGTGTGATAGATGATGGCAGATGTTATCTCTGTCCGTGTCTAGGCTATCCAAGACAATGGCGTTCAGAAGATATTTACCAGGAAATAAATGAGACGATACAAATAATAGAAATTTAAAATGCGCAAACCTGACCCAGTTTGCGCATTTTATGTTTTACACACGCGAGTAATGTGTTTACTTACGTGTGTTTATTTTGTTGCTGATTTTCAATTGTATATGAATGTGGTTGCACATAAATGCACTTTC SEQ_LEN: 259 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 257 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: eeeeeeeeeeeeeeeeeeeeeehhhghffgghhhhgghhhhhhhgffhheeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeaaadeeeda]]]ddeeeeeeeeeeeeeeeeeedddedd]]]]dddeeeeeeeeeeeeeeeeedddeeedddddeeeeeeeeeeeeeeeeeeeeeedd\\\ddddeeeeeeeddddddddeeeeeeeeeeeedddddddedddddddddddaaadddddVVRY__]YPPMO +X_POS: 1058 +Y_POS: 1859 --- SEQ_NAME: FQIBXOY01CEZSI SEQ: TCAGAGGTTATGACGTTAAAGCTATTGATGGTCATTCGAACATAACAGAAGCAAGTTTGAAAAGTTCCAAAATATTTGTAATTCCTGAGGCTAACATTCCTTTCAAAGAATCAGAACAGGCAGCAATTGTTAAATATGTGAAACAAGGTGGCAATGTTGTCTTTATTTCAGATCATTACAATGCTGACCGAAATTTAAATCGTATTGATTCATCGGAGGCAATGAATGGTTATCGACGTGGAGCATATGAAGATATG SEQ_LEN: 257 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 253 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: eeeeeeeeeeeeeeeeedddddfhhfffffhfhhhhhhhhhhhhhhhhfeeeeeeddcccceeeeeeeeeeeeecccc```ddeeeedddddddeeddddeedd```eeeeeeeeeeeeeeeeeeeeeeeecccddeeee\\\deeeeeeeeeeeeeeeeeeeeeeeeeccceeeeeeeeeeeeeeeeed\\\ccceeeeeeeeeeeedddeeeeeeeeedddddddeefeddddddddddaaaddddd____^YYY +X_POS: 873 +Y_POS: 3104 --- SEQ_NAME: FQIBXOY01C4ETH SEQ: TCAGTGAAACAAACACGCAACAATCATTTGCTAATTGTAAGCAACTTAGACAAGTATATCCGAATGGTGTCACTGCCGATCATCCAGCATATCGACCACATTTAGATAGAGATAAAGATAAACGTGCATGTGAACCTGATAAATATTAAACAACAAGCGAATTGAATTCAAATTGTATTTAGCTTTATGCACTAATCACATAGTAAATAATGAGGGAGATTTTTTAGGCATGAGCAATCAATTCAAAAG SEQ_LEN: 249 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 248 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: eeeeeeeeeeeeeeeeeeeeeehgffaaahheggeddddddddegggfgeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeddddeeeeeeeeeeeeeeeeeedddeeedddddeeeeeeeeeeeeeeeeeeeeeeedd\\\adeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeee`_____aaaddaaadddddd[[[[dZZZZ^ +X_POS: 1163 +Y_POS: 1139 --- SEQ_NAME: FQIBXOY01BXD7A SEQ: TCAGAAAAGCTTTATAATTTTATAATTGCTAAATCTTTTCAACAACCAGTTGGAAGTACGTTCACTTATGGTGAATTAAGAAAGAAATATAATGTGGTTTGTAGCACGAATGATCAACGTGAAGTAGGACGTCGTTTTGCTTACTGGATTAAGTACACGCCAGGATTACCATTTAAAATGTAGGAACAAAAAATGGCAGTTATTATATCAGAAATAGGGATAAACCCATGTCAATAATAGCACGCCTTCGAAAGGAGGTGATTGCTAATGAGTTACACNTTAGTTTG SEQ_LEN: 287 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 177 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: ]]]XRRRR^^[[[^[^^^^^^[PTRWW```^^^WYW^^_^^]\XXVWWYXXWWXX\a\^^[[[\^^^^\]]\\XXXXVVXPPPVUWW]Z\\\^^^^^`^^WUW````^^^``__^^^^`^^[[[_\\\\\\\UPPPPPMVXXZXQUUVVVZZ^\XUUUUUUYZUOOMMMWWUUUMMMMJMMWRRMMMNNNNNNRRWURLLLRPPRTUUULLLLLRMUUURQOSSXTTMOOOWWWWWTTOQQQKKKQKKKKKKKKKKOKKKPKKKKPRROPKKKPRPOO@KKPPLKKK +X_POS: 673 +Y_POS: 1172 --- SEQ_NAME: FQIBXOY01BWE7M SEQ: TCAGTATGATGACGGCTAATGATGATGTAGAGGCGCCGAGTGACTTTGAAAAAATCAGAGCTGAAGTTTCATGGTAATAGATATTATCATTTTTGAATTAATTATATTAATGTGTTTAGCAATAGCACTGGAGGTGTTGTAAATATGTGGATTGTCATTTCAATTGTTTTATCTATATTTTTATTGATCTTGTTAAGTAGCATTTCTCATAAGATGAAAACCATAGAAGCATTGGAGTATATGAATG SEQ_LEN: 247 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 242 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: eeeeeeeeeeeeedddeeeeeehhhhhhhhhhhhhhhhhhhhhhhhff__ff__eeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeedddeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeaafddddaaadddddddeddddddddd +X_POS: 662 +Y_POS: 880 --- SEQ_NAME: FQIBXOY01A2RM8 SEQ: TCAGAAACTAAAAAACTTAAAAAAGCATGCCAATCAGTACATCATAATTGCGTCTTGGGGACAGACAAATGATGAATAGAGATTGGCATGCTTTTTATTTTTGAATATAAATATTTAGTTCATGGCATTTCTAGTTACATGACGTCCATGAATTAAGAAGTAAACAAGCATAGTAATGATTGCTAAAGCGGCCATAAAGCCGAAGATTTCACTATATGAAAACATATGAGTAAATAACCCAAGGAATGATGGACCGAAGCCGAC SEQ_LEN: 264 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 261 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: ```^OOO[ULLLLLLS[[IIIIII[[`````bbbccddcccddddddddbbbbbbbbbbb__^_^[TTT__`bbbb`^_^bbbbbbbbb``YY^^Y`JJJJJZZZ]]XXZ``[TTTZ``]bbb`___ZZZ_]bb````^__b_^_^^`````bbbbbbbbb```b`````bbbb``]]]bb`]YSRRR`````]QQQR]]]`]]]]`b``XXX]`XXXXYYVVMVSZZZXSNNNNKKNNVXXSSSV][VPPPYYYYYYYYYYYY +X_POS: 324 +Y_POS: 1762 --- SEQ_NAME: FQIBXOY01API7E SEQ: TCAGCAATAGATATAATTTATGGTTTATATCTATTTCGGCATCTTTACCTTTCACTTGTTCAACTTATGTACCATAAATACTTCTGACAAGTTACTAATTAAACATGCAACCTCTAACTCAATTTAATATTTTAACTAACTTGTAATATACAGGATTCATCACGCATAATCAACCCTGTAAAACTTGATACGCAATAAAAGTTTTAAAGCATTTTATTGCGACAACTGTCTATCTATGTTTTTTCAAACGAATTTCATCAACTAGATTCCAGATAAATTC SEQ_LEN: 280 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 278 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: eeeeeeeeeeeeeeeeeeeeeeggfffffhffffffffffefeeeefeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeddddddeeeeeeeeeeeeeeeeedddeeeeeeeeee``\\\``eeddddeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeccccdddeeeeeedccccdeeeee```ceeee````WWceeeeeccccceedddddddddddddda\[[[^]]]adaaad_____________^^^_\\\\^___\\\\\\ +X_POS: 173 +Y_POS: 2792 --- SEQ_NAME: FQIBXOY01BJJRF SEQ: TCAGTAACTATCAAATAAAATGATAACGGTTTCATCTATCTATTTTATCGGTCTAGTGGCTGATTTCAAGCTAGAAATATTGAATGACAATACAACTCTGTTAAAATGATGGACGTAGACAAATATGCGTATTGACGCTTTATTTTAAAAATTAACATGCTTATAACATGTTTATAGAAGGAGATTAACCTATGAACTATCAAGTTCTTTTATATTATAAATATATGACGATTGATGACCCTGAACAGTTTGCTCAGGATCAC SEQ_LEN: 263 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 260 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: cccc```ccbbb___bXXXXbbcccegeeddffffffedddecdddccccbbbccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccbbbccccccccbbbbccccccccccccccccccccccccccccccccccccccVVVVVVaccbbbcccccccccccccccccccccccccccccccccccaaaaccccccccccccaWRR\YVVVVVVYYYY +X_POS: 515 +Y_POS: 2361 --- diff --git a/bp_test/out/read_sff.out.2 b/bp_test/out/read_sff.out.2 index 7591dc9..7f9a466 100644 --- a/bp_test/out/read_sff.out.2 +++ b/bp_test/out/read_sff.out.2 @@ -3,7 +3,9 @@ SEQ: TCAGTCATATTTTTTAGAAACATGTTTGTTTGGACTCATTAATTCATGATTAAAATCACCATCATTCGTTATCAA SEQ_LEN: 279 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 277 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: aaa`[[[_[NNNNNNTUP[[__`abbcccddddeeeeeeedddcdcccc``bbbbaaaba_`````bbbbba````____\\\\``_aabbbbbbbba````_WVV\\bbbb``\\`^_bXbbb_`_``bbbbbaaabbb___aabbaaa[[UUUbbbZZZZZabbbbbcaa[[UUU[[[[aabbbac____aPPNNNNPP]PPPWWabaaaabbbbbbbaaabbbbbaaabbbXXX__XXXXXXXXXXUYYUUUY[UUUYUUUUYXXMMMMRKMMMMM +X_POS: 1426 +Y_POS: 1923 --- diff --git a/bp_test/out/read_sff.out.3 b/bp_test/out/read_sff.out.3 index a8e3bcf..b42ba33 100644 --- a/bp_test/out/read_sff.out.3 +++ b/bp_test/out/read_sff.out.3 @@ -3,7 +3,9 @@ SEQ: tcagTCATATTTTTTAGAAACATGTTTGTTTGGACTCATTAATTCATGATTAAAATCACCATCATTCGTTATCAA SEQ_LEN: 279 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 277 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: aaa`[[[_[NNNNNNTUP[[__`abbcccddddeeeeeeedddcdcccc``bbbbaaaba_`````bbbbba````____\\\\``_aabbbbbbbba````_WVV\\bbbb``\\`^_bXbbb_`_``bbbbbaaabbb___aabbaaa[[UUUbbbZZZZZabbbbbcaa[[UUU[[[[aabbbac____aPPNNNNPP]PPPWWabaaaabbbbbbbaaabbbbbaaabbbXXX__XXXXXXXXXXUYYUUUY[UUUYUUUUYXXMMMMRKMMMMM +X_POS: 1426 +Y_POS: 1923 --- diff --git a/bp_test/out/read_sff.out.4 b/bp_test/out/read_sff.out.4 index 9809971..386e11d 100644 --- a/bp_test/out/read_sff.out.4 +++ b/bp_test/out/read_sff.out.4 @@ -3,7 +3,9 @@ SEQ: TCATATTTTTTAGAAACATGTTTGTTTGGACTCATTAATTCATGATTAAAATCACCATCATTCGTTATCAATAAA SEQ_LEN: 274 CLIP_QUAL_LEFT: 4 CLIP_QUAL_RIGHT: 277 -CLIP_ADAPTOR_LEFT: 0 -CLIP_ADAPTOR_RIGHT: 0 +CLIP_ADAPTOR_LEFT: -1 +CLIP_ADAPTOR_RIGHT: -1 SCORES: [[[_[NNNNNNTUP[[__`abbcccddddeeeeeeedddcdcccc``bbbbaaaba_`````bbbbba````____\\\\``_aabbbbbbbba````_WVV\\bbbb``\\`^_bXbbb_`_``bbbbbaaabbb___aabbaaa[[UUUbbbZZZZZabbbbbcaa[[UUU[[[[aabbbac____aPPNNNNPP]PPPWWabaaaabbbbbbbaaabbbbbaaabbbXXX__XXXXXXXXXXUYYUUUY[UUUYUUUUYXXMMMMRKMMMM +X_POS: 1426 +Y_POS: 1923 --- -- 2.39.2