Hatena::Groupbioruby

"aac".translate #=> "N" このページをアンテナに追加 RSSフィード

2008-01-10

H-InvDB REST web service client class added

|  H-InvDB REST web service client class added - "aac".translate #=> "N" を含むブックマーク はてなブックマーク -  H-InvDB REST web service client class added - "aac".translate #=> "N"  H-InvDB REST web service client class added - "aac".translate #=> "N" のブックマークコメント

Katayama-san commited a new IO class Bio::Hinv to access the H-InvDB REST web service.

H-InvDB web service provides 12 APIs.

acc2hit - HIT ID of accession number

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <H-INVITATIONAL-ID>HIT000053961</H-INVITATIONAL-ID>
</H-Inv>

In bioruby,

irb(main):001:0> require 'bio'
irb(main):002:0> Bio::Hinv.acc2hit("BC053657")
=> "HIT000053961"

hit2acc - Accession No of HIT ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <ACCESSION-NO>AK097327</ACCESSION-NO>
</H-Inv>% 

In bioruby:

irb(main):003:0> Bio::Hinv.hit2acc("HIT000022181") 
=> "AK097327"

hit_cnt - total number of HIT ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <TRANSCRIPT_CNT>187156</TRANSCRIPT_CNT>
</H-Inv>

The last line don't have return code.

In bioruby:

irb(main):004:0> Bio::Hinv.hit_cnt 
=> 187156

hit_definition - HIT definition of HIT ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <HIT_FUNCTION>
                <H-INVITATIONAL-ID>HIT000000001</H-INVITATIONAL-ID>
                <DATA-SOURCE_DEFINITION>Rho guanine nucleotide exchange factor 10.</DATA-SOURCE_DEFINITION>
                <CDNA_REP-H-INVITATIONAL>Representative transcript</CDNA_REP-H-INVITATIONAL>
                <CDNA_SPLICING-ISOFORM_CURATION></CDNA_SPLICING-ISOFORM_CURATION>
                <DATA-SOURCE_DB-REFERENCE_PROTEIN-MOTIF-ID>NP_055444</DATA-SOURCE_DB-REFERENCE_PROTEIN-MOTIF-ID>
                <DATA-SOURCE_IDENTITY>100.0</DATA-SOURCE_IDENTITY>
                <DATA-SOURCE_COVERAGE>100.0</DATA-SOURCE_COVERAGE>
                <DATA-SOURCE_HOMOLOGOUS_SPECIES>Homo sapiens</DATA-SOURCE_HOMOLOGOUS_SPECIES>
                <DATA-SOURCE_SIMILARITY-CATEGORY>Identical to known human protein(Category I).</DATA-SOURCE_SIMILARITY-CATEGORY>
        </HIT_FUNCTION>
</H-Inv>

In bioruby:

simple access

irb(main):006:0> Bio::Hinv.hit_definition("HIT000000001") 
=> "Rho guanine nucleotide exchange factor 10."

and full access

irb(main):007:0> serv = Bio::Hinv::HitDefinition.new
irb(main):008:0> serv.query("hit" => "HIT000000001")
irb(main):009:0> serv.result
=> "Rho guanine nucleotide exchange factor 10."
irb(main):010:0> serv.data_source_definition
=> "Rho guanine nucleotide exchange factor 10."
irb(main):011:0> serv.cdna_rep_h_invitational
=> "Representative transcript"
irb(main):012:0> serv.cdna_splicing_isoform_curation
=> nil
irb(main):013:0> serv.data_source_db_reference_protein_motif_id
=> "NP_055444"
irb(main):014:0> serv.data_source_identity
=> 100.0
irb(main):015:0> serv.data_source_coverage
=> 100.0
irb(main):016:0> serv.data_source_homologous_species
=> "Homo sapiens"
irb(main):017:0> serv.data_source_similarity_category
=> "Identical to known human protein(Category I)."

hit_pubmedid - PMID of HIT ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
<CDNA_DB-REFERENCE_PUBMED>7624364</CDNA_DB-REFERENCE_PUBMED>
<CDNA_DB-REFERENCE_PUBMED>11279095</CDNA_DB-REFERENCE_PUBMED>
<CDNA_DB-REFERENCE_PUBMED>15489334</CDNA_DB-REFERENCE_PUBMED>
</H-Inv>

In bioruby:

irb(main):031:0> Bio::Hinv.hit_pubmedid("HIT000053961")
=> [7624364, 11279095, 15489334]

hit_xml - HIT XML file of HIT ID

URI:

Output:

ifier

In bioruby:

simple access

irb(main):051:0> Bio::Hinv.hit_xml("HIT000000001")
=> "<?xml version="1.0" standalone="yes" ?> ...

and (incomplete) full access

irb(main):005:0> serv = Bio::Hinv::HitXML.new
irb(main):006:0> serv.query("hit" =>"HIT000000001")
irb(main):007:0> serv.result
=> "Rho guanine nucleotide exchange factor 10."
irb(main):071:0> a.instance_eval { @xml.elements.each("//MOL-TYPE") {|x| p x.text } }
"mRNA"
=> [<MOL-TYPE> ... </>]

hix2hit - HIT ID of HIT ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
<H-INVITATIONAL-ID>HIT000012846</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022124</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000007722</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000281202</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000293297</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000283989</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000299690</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000284643</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000280349</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000297167</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000274447</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000301319</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000293727</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000261011_01</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000339817</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000301513</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000088658_01</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000393264</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000262478</H-INVITATIONAL-ID>
</H-Inv>

In bioruby:

irb(main):007:0> Bio::Hinv.hix2hit("HIX0000001")
=> ["HIT000022181"]
|ruby|<

** hix_cnt - total number of HIX ID
URI:
- http://jbirc.jbic.or.jp/hinv/hws/hix_cnt.php

Output:
>|xml|
<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <LOCUS_CNT>36073</LOCUS_CNT>
</H-Inv>

In bioruby:

irb(main):078:0> Bio::Hinv.hix_cnt
=> 36073

hix_represent - representative HIT ID of HIX ID

URI:

Output:

<?xml version='1.0' encoding='UTF-8'?>
<H-Inv>
        <LOCUS>
                <CLUSTER-ID>HIX0000001</CLUSTER-ID>
                <REP-H-INVITATIONAL-ID>HIT000022181</REP-H-INVITATIONAL-ID>
                <REP-ACCESSION-NO>AK097327</REP-ACCESSION-NO>
        </LOCUS>
</H-Inv>

In bioruby:

irb(main):079:0> Bio::Hinv.hix_represent("HIX0000001")
=> "HIT000022181"
irb(main):081:0> serv=Bio::Hinv::HixRepresent.new
irb(main):082:0> serv.query("hix"=>"HIX0000001")
irb(main):085:0> serv.rep_accession_no
=> "AK097327"
irb(main):086:0> serv.rep_h_invitational_id
=> "HIT000022181"

hix_xml - HIX XML file of HIX ID

URI:

Output:



			

In bioruby:



			

id_search - HIT ID of any ID

URI:


Output:

<?xml version='1.0' encoding='UTF-8'?>
<HINVDB_SEARCH>
<QUERY>HIT00002218*</QUERY>
<ID_TYPE>H-INVITATIONAL-ID</ID_TYPE>
<SIZE>8</SIZE>
<START>1</START>
<END>8</END>
<H-INVITATIONAL-ID>HIT000022181</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022184</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022189</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022180</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022185</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022183</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022188</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022186</H-INVITATIONAL-ID>
</HINVDB_SEARCH>||<

In bioruby:
>|ruby|
irb(main):088:0> Bio::Hinv.id_search("HIT00002218*")
=> ["HIT000022181", "HIT000022184", "HIT000022189", "HIT000022180", "HIT000022185", "HIT000022183", "HIT000022188", "HIT000022186"]
irb(main):090:0> serv = Bio::Hinv::IdSearch.new
irb(main):093:0> serv.query("query" => "HIT00002218*", "start" => "1", "end" => "100")

keyword_search - HIT ID of any ID

URI:


Output:

<?xml version='1.0' encoding='UTF-8'?>
<HINVDB_SEARCH>
<QUERY>HIT00002218*</QUERY>
<SIZE>8</SIZE>
<START>1</START>
<END>8</END>
<H-INVITATIONAL-ID>HIT000022180</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022181</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022183</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022184</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022185</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022186</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022188</H-INVITATIONAL-ID>
<H-INVITATIONAL-ID>HIT000022189</H-INVITATIONAL-ID>
</HINVDB_SEARCH>

In bioruby:

irb(main):089:0> Bio::Hinv.keyword_search("HIT00002218*")
=> ["HIT000022180", "HIT000022181", "HIT000022183", "HIT000022184", "HIT000022185", "HIT000022186", "HIT000022188", "HIT000022189"]
irb(main):090:0> serv = Bio::Hinv::KeywordSearch.new
irb(main):093:0> serv.query("query" => "HIT00002218*", "start" => "1", "end" => "100")

Summary

  1. Classes for H-InvDB REST web service are available on BioRuby CVS HEAD.
  2. Access methods for some complicated outputs are no implemented.
  3. URI design of the H-InvDB REST web service is not good. For example, acc2hit api contains redundunt "acc" term twice (http://jbirc.jbic.or.jp/hinv/hws/acc2hit.php?acc=BC053657).
トラックバック - http://bioruby.g.hatena.ne.jp/nakao_mitsuteru/20080110

2007-12-30

BioRuby 1.2.1 released

|  BioRuby 1.2.1 released - "aac".translate #=> "N" を含むブックマーク はてなブックマーク -  BioRuby 1.2.1 released - "aac".translate #=> "N"  BioRuby 1.2.1 released - "aac".translate #=> "N" のブックマークコメント

Katayama-san announced the BioRuby 1.2.1 release today.

Hi all,

I just released the BioRuby 1.2.1 including fix for BLAST 2.2.17 output.

Note that this version is not yet Ruby 1.9 compliant.

http://bioruby.org/archive/bioruby-1.2.1.tar.gz

http://rubyforge.org/projects/bioruby/

You can see changes at

http://cvs.open-bio.org/cgi-bin/viewcvs/viewcvs.cgi/bioruby/ChangeLog?rev=1.79&cvsroot=bioruby

P.S.

Unfortunately, I removed the RAA entry for BioRuby by mistake (I need to sleep now :).

I immediately re-added as a new project but our history was lost.

http://raa.ruby-lang.org/project/bioruby/

I took a screenshot of the old admin screen for record.

http://bioruby.org/tmp/bioruby-deleted-raa.png

Happy holidays!

Regards,

Toshiaki Katayama

http://lists.open-bio.org/pipermail/bioruby/2007-December/000519.html
トラックバック - http://bioruby.g.hatena.ne.jp/nakao_mitsuteru/20071230

2007-12-25

bioruby CVS HEAD on ruby 1.9.0

|  bioruby CVS HEAD on ruby 1.9.0  - "aac".translate #=> "N" を含むブックマーク はてなブックマーク -  bioruby CVS HEAD on ruby 1.9.0  - "aac".translate #=> "N"  bioruby CVS HEAD on ruby 1.9.0  - "aac".translate #=> "N" のブックマークコメント

Matz released Ruby 1.9.0 today (tmorrow ?). So I checked the bioruby test suits.

There are known issues (related with bioruby),

  1. soap4r,
  2. gem and
  3. some methods removed (String#each, String#collect.

SyntaxError

First off, I got a SyntaxError to run the tests.

$ /usr/local/bin/ruby install.rb test
install.rb: entering test phase...
Running all tests in test...
/usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:90:in `require': /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_alignment.rb:430: syntax error, unexpected ']' (SyntaxError)
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:90:in `collect_file'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:73:in `block in recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `each'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:63:in `block in recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `each'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:63:in `block in recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `each'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:58:in `recursive_collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/collector/dir.rb:29:in `collect'
        from /usr/local/lib/ruby/1.9.0/test/unit/autorunner.rb:68:in `block (1 levels) in <class:AutoRunner>'
        from /usr/local/lib/ruby/1.9.0/test/unit/autorunner.rb:213:in `[]'
        from /usr/local/lib/ruby/1.9.0/test/unit/autorunner.rb:213:in `run'
        from install.rb:671:in `exec_test'
        from install.rb:927:in `try'
        from install.rb:920:in `exectask'
        from install.rb:906:in `invoke'
        from install.rb:874:in `invoke'
        from install.rb:1108:in `<main>'

To solve it.

$ diff -u test/unit/bio/test_alignment.rb.\~1.11.\~ test/unit/bio/test_alignment.rb                                      07-12-26
--- test/unit/bio/test_alignment.rb.~1.11.~     2007-04-07 01:55:16.000000000 +0900
+++ test/unit/bio/test_alignment.rb     2007-12-26 01:29:27.000000000 +0900
@@ -426,7 +426,7 @@
         Sequence::AA.new('MNSA'),
         Sequence::AA.new('MHTL'),
         Sequence::AA.new('MQNV'),
-        Sequence::AA.new('MKKW'),
+        Sequence::AA.new('MKKW')
       ]
       assert_equal('*:. ', a.match_line)
       assert_equal('*:. ', a.match_line(:type => :aa))

1322 tests, 2384 assertions, 67 failures, 167 errors

I got so many errors from the bioruby test suits :-(

Just I show the terminal message.

$ /usr/local/bin/ruby install.rb test
install.rb: entering test phase...
Running all tests in test...
Loaded suite test
Started
..........EEEE.....................................................................E...........................................................................................................E...............E...........................F.FFFF..FE.............................................................................................................E..........................F...........EEFFFFF.FFFEEEEEEEEE........................................................................................EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE.EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE..................................................EEE.......................EEEEEEEEE.EEEEE.............................................................................................................................................FFFF..............................E..........................................FFFFFFFFFFFFFF...............EEE.E....................................F.FF.FFFF......F.....................F..E......FFFFF..............E....EEEEEEEEEEEEEEEEEEEEEEEEEE...F..........F.......E...EE....EE...EEF............................................FF.......................................................................................EEFF.FF..FF......F...FF.....F...FF....................FF.F.........................
Finished in 40.870631 seconds.

  1) Error:
test_log(Bio::FuncTestSOAPWSDL):
NameError: uninitialized constant Bio::SOAPWSDL::SOAP
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:63:in `create_driver'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:57:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `setup'

  2) Error:
test_set_log(Bio::FuncTestSOAPWSDL):
NameError: uninitialized constant Bio::SOAPWSDL::SOAP
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:63:in `create_driver'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:57:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `setup'

  3) Error:
test_set_wsdl(Bio::FuncTestSOAPWSDL):
NameError: uninitialized constant Bio::SOAPWSDL::SOAP
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:63:in `create_driver'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:57:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `setup'

  4) Error:
test_wsdl(Bio::FuncTestSOAPWSDL):
NameError: uninitialized constant Bio::SOAPWSDL::SOAP
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:63:in `create_driver'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/io/soapwsdl.rb:57:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/functional/bio/io/test_soapwsdl.rb:25:in `setup'

  5) Error:
test_each_window(Bio::TestAlignmentEnumerableExtension):
NoMethodError: undefined method `+' for nil:NilClass
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/alignment.rb:488:in `each_window'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_alignment.rb:329:in `test_each_window'

  6) Error:
test_cliquishness(Bio::TestMyGraph):
ArgumentError: wrong number of arguments (0 for 1)
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:25:in `sum'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:65:in `cliquishness'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:82:in `test_cliquishness'

  7) Error:
test_format_bibitem(Bio::TestReference):
NoMethodError: undefined method `collect' for #<String:0x243ab78>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/reference.rb:263:in `bibitem'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/reference.rb:176:in `format'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_reference.rb:100:in `test_format_bibitem'

  8) Failure:
test_depth_first_search(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:291]:
timestamps wrong.
<{"v"=>[1, 6],
 "w"=>[2, 5],
 "x"=>[7, 10],
 "y"=>[11, 16],
 "z"=>[8, 9],
 "q"=>[12, 15],
 "r"=>[17, 20],
 "s"=>[3, 4],
 "t"=>[13, 14],
 "u"=>[18, 19]}> expected but was
<{"q"=>[1, 16],
 "s"=>[2, 7],
 "v"=>[3, 6],
 "w"=>[4, 5],
 "t"=>[8, 15],
 "x"=>[9, 12],
 "z"=>[10, 11],
 "y"=>[13, 14],
 "r"=>[17, 20],
 "u"=>[18, 19]}>.

  9) Failure:
test_dump_list(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:184]:
<"v => w (1)\nw => s (1)\nx => z (1)\ny => q (1)\nz => x (1)\nq => w (1), s (1), t (1)\nr => y (1), u (1)\ns => v (1)\nt => x (1), y (1)\nu => y (1)\n"> expected but was
<"q => s (1), t (1), w (1)\ns => v (1)\nt => x (1), y (1)\nw => s (1)\nr => u (1), y (1)\nu => y (1)\ny => q (1)\nv => w (1)\nx => z (1)\nz => x (1)\n">.

 10) Failure:
test_dump_matrix(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:170]:
<"[# v, w, x, y, z, q, r, s, t, u\n [0, 1, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 0, 0, 1, 0, 0],\n [0, 0, 0, 0, 1, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 1, 0, 0, 0, 0],\n [0, 0, 1, 0, 0, 0, 0, 0, 0, 0],\n [0, 1, 0, 0, 0, 0, 0, 1, 1, 0],\n [0, 0, 0, 1, 0, 0, 0, 0, 0, 1],\n [1, 0, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 1, 1, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 1, 0, 0, 0, 0, 0, 0]\n]"> expected but was
<"[# q, s, t, w, r, u, y, v, x, z\n [0, 1, 1, 1, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 0, 0, 1, 0, 0],\n [0, 0, 0, 0, 0, 0, 1, 0, 1, 0],\n [0, 1, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 1, 1, 0, 0, 0],\n [0, 0, 0, 0, 0, 0, 1, 0, 0, 0],\n [1, 0, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 1, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 0, 0, 0, 0, 1],\n [0, 0, 0, 0, 0, 0, 0, 0, 1, 0]\n]">.

 11) Failure:
test_extract_subgraph_by_label(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:195]:
<"v => w (1)\nw => s (1)\nq => w (1), s (1)\ns => v (1)\n"> expected but was
<"q => s (1), w (1)\ns => v (1)\nw => s (1)\nv => w (1)\n">.

 12) Failure:
test_extract_subgraph_by_list(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:205]:
<"x => z (1)\ny => q (1)\nz => x (1)\nq => t (1)\nt => x (1), y (1)\n"> expected but was
<"q => t (1)\nt => x (1), y (1)\ny => q (1)\nx => z (1)\nz => x (1)\n">.

 13) Failure:
test_to_matrix(Bio::TestSampleGraph) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:153]:
matrix wrong.
<Matrix[[0, 1, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 1, 0, 0], [0, 0, 0, 0, 1, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 1, 0, 0, 0, 0], [0, 0, 1, 0, 0, 0, 0, 0, 0, 0], [0, 1, 0, 0, 0, 0, 0, 1, 1, 0], [0, 0, 0, 1, 0, 0, 0, 0, 0, 1], [1, 0, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 1, 1, 0, 0, 0, 0, 0, 0], [0, 0, 0, 1, 0, 0, 0, 0, 0, 0]]> expected but was
<Matrix[[0, 1, 1, 1, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 1, 0, 0], [0, 0, 0, 0, 0, 0, 1, 0, 1, 0], [0, 1, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 1, 1, 0, 0, 0], [0, 0, 0, 0, 0, 0, 1, 0, 0, 0], [1, 0, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 0, 1, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 0, 0, 1], [0, 0, 0, 0, 0, 0, 0, 0, 1, 0]]>.

 14) Error:
test_undirected_cliquishness(Bio::TestSampleGraph):
ArgumentError: wrong number of arguments (0 for 1)
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:25:in `sum'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:65:in `cliquishness'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/test_pathway.rb:230:in `test_undirected_cliquishness'

 15) Error:
test_blast_reports(Bio::TestBlast):
NoMethodError: undefined method `each' for #<String:0x2517d70>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/blast.rb:109:in `reports'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_blast.rb:125:in `test_blast_reports'

 16) Failure:
test_option(Bio::TestFasta) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_fasta.rb:99]:
<"[\"-M\"]"> expected but was
<"\\[-M\\]">.

 17) Error:
test_exec(Bio::TestPTS1):
NoMethodError: undefined method `each' for #<String:0x249ab68>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:85:in `test_exec'

 18) Error:
test_exec_with_faa(Bio::TestPTS1):
NoMethodError: undefined method `each' for #<String:0x2497490>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:90:in `test_exec_with_faa'

 19) Failure:
test_function_set(Bio::TestPTS1) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:61]:
<"GENERAL"> expected but was
<"[\"GENERAL\"]">.

 20) Failure:
test_function_set_number_1(Bio::TestPTS1) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:70]:
<"METAZOA-specific"> expected but was
<"[\"METAZOA-specific\"]">.

 21) Failure:
test_function_set_number_2(Bio::TestPTS1) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:75]:
<"FUNGI-specific"> expected but was
<"[\"FUNGI-specific\"]">.

 22) Failure:
test_function_set_number_3(Bio::TestPTS1) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:80]:
<"GENERAL"> expected but was
<"[\"GENERAL\"]">.

 23) Failure:
test_function_show(Bio::TestPTS1) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:65]:
<"METAZOA-specific"> expected but was
<"[\"METAZOA-specific\"]">.

 24) Failure:
test_fungi(Bio::TestPTS1New) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:37]:
<"FUNGI-specific"> expected but was
<"[\"FUNGI-specific\"]">.

 25) Failure:
test_general(Bio::TestPTS1New) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:42]:
<"GENERAL"> expected but was
<"[\"GENERAL\"]">.

 26) Failure:
test_metazoa(Bio::TestPTS1New) [/Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:32]:
<"METAZOA-specific"> expected but was
<"[\"METAZOA-specific\"]">.

 27) Error:
test_cterm(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x2466598>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 28) Error:
test_entry_id(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x2462c04>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 29) Error:
test_fp(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x245f48c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 30) Error:
test_output_size(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x245c4d0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 31) Error:
test_prediction(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x24592e4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 32) Error:
test_profile(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x24543e8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 33) Error:
test_score(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x2450784>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 34) Error:
test_sppta(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x244c918>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 35) Error:
test_spptna(Bio::TestPTS1Report):
NoMethodError: undefined method `each' for #<String:0x244846c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:232:in `parse'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:222:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/pts1.rb:155:in `exec'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/test_pts1.rb:100:in `setup'

 36) Error:
test_date_run(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x25134b4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 37) Error:
test_gccontent(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x2510674>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 38) Error:
test_genscan_version(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x250bc64>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 39) Error:
test_isochore(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x2508dfc>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 40) Error:
test_length(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x2505a58>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 41) Error:
test_matrix(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x2502100>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 42) Error:
test_predictions_size(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x24fe564>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 43) Error:
test_query_name(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x24f7390>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 44) Error:
test_time(Bio::TestGenscanReport):
NoMethodError: undefined method `each' for #<String:0x24f2f48>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:27:in `setup'

 45) Error:
test_acceptor_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24f0388>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 46) Error:
test_donor_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24e9114>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 47) Error:
test_exon_type(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24e5cf8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 48) Error:
test_exon_type_long(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24e25bc>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 49) Error:
test_first(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24ded18>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 50) Error:
test_initiation_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24db8c0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 51) Error:
test_last(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24d8a6c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 52) Error:
test_number(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24d595c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 53) Error:
test_p_value(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24d24dc>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 54) Error:
test_phase(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24cecb0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 55) Error:
test_range(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24cb59c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 56) Error:
test_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24c7f78>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 57) Error:
test_strand(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24c5214>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 58) Error:
test_t_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24c2550>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 59) Error:
test_termination_score(Bio::TestGenscanReportExon):
NoMethodError: undefined method `each' for #<String:0x24bf314>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:117:in `setup'

 60) Error:
test_aaseq(Bio::TestGenscanReportGene):
NoMethodError: undefined method `each' for #<String:0x24bc04c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `setup'

 61) Error:
test_naseq(Bio::TestGenscanReportGene):
NoMethodError: undefined method `each' for #<String:0x24b920c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `setup'

 62) Error:
test_number(Bio::TestGenscanReportGene):
NoMethodError: undefined method `each' for #<String:0x24b1b88>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `setup'

 63) Error:
test_polyA(Bio::TestGenscanReportGene):
NoMethodError: undefined method `each' for #<String:0x24ac818>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `setup'

 64) Error:
test_promoter(Bio::TestGenscanReportGene):
NoMethodError: undefined method `each' for #<String:0x24a9dd4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/genscan/report.rb:78:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/genscan/test_report.rb:75:in `setup'

 65) Error:
test_reports_ary(Bio::TestHMMERReportClassMethods):
NoMethodError: undefined method `each' for #<String:0x24a9564>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:64:in `reports'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:45:in `test_reports_ary'

 66) Error:
test_accession(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a7d04>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 67) Error:
test_append_hsp(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a6a44>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 68) Error:
test_bit_score(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a5950>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 69) Error:
test_definition(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a4640>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 70) Error:
test_description(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a32b8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 71) Error:
test_each(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a1f58>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 72) Error:
test_each_hsp(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x24a0bd0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 73) Error:
test_entry_id(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249fc44>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 74) Error:
test_evalue(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249ece0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 75) Error:
test_hit(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249db10>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 76) Error:
test_hit_id(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249c92c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 77) Error:
test_hsps(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249b888>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 78) Error:
test_num(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249a7e4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 79) Error:
test_score(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x249927c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 80) Error:
test_target_def(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x2497fd0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 81) Error:
test_target_id(Bio::TestHMMERReportHit):
NoMethodError: undefined method `each' for #<String:0x2496e00>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:130:in `setup'

 82) Error:
test_domain_top_hits(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x24959d8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 83) Error:
test_each(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x2494a4c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 84) Error:
test_each_hit(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x2493a98>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 85) Error:
test_histogram(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x2492a58>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 86) Error:
test_hits(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x2491608>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 87) Error:
test_hsps(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x2490578>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 88) Error:
test_parameter(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x248f600>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 89) Error:
test_program(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x248e548>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 90) Error:
test_query_info(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x248d10c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 91) Error:
test_statistical_detail(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x248bb68>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 92) Error:
test_total_seq_searched(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x248a948>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 93) Error:
test_whole_seq_top_hits(Bio::TestHMMERReportHmmpfam):
NoMethodError: undefined method `each' for #<String:0x24899d0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:62:in `setup'

 94) Error:
test_domain_top_hits(Bio::TestHMMERReportHmmsearch):
NoMethodError: undefined method `each' for #<String:0x2488a6c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `setup'

 95) Error:
test_histogram(Bio::TestHMMERReportHmmsearch):
NoMethodError: undefined method `each' for #<String:0x2487ae0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `setup'

 96) Error:
test_statistical_detail(Bio::TestHMMERReportHmmsearch):
NoMethodError: undefined method `each' for #<String:0x2486b2c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `setup'

 97) Error:
test_total_seq_searched(Bio::TestHMMERReportHmmsearch):
NoMethodError: undefined method `each' for #<String:0x2485bb4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `setup'

 98) Error:
test_whole_seq_top_hit(Bio::TestHMMERReportHmmsearch):
NoMethodError: undefined method `each' for #<String:0x2484b88>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:305:in `setup'

 99) Error:
test_accession(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2483b84>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

100) Error:
test_bit_score(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2482bd0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

101) Error:
test_csline(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2481b90>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

102) Error:
test_domain(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2480ba0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

103) Error:
test_evalue(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x247fac0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

104) Error:
test_flatseq(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x247ea44>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

105) Error:
test_hmm_f(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x247da04>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

106) Error:
test_hmm_t(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x247c9ec>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

107) Error:
test_hmmseq(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x247a9d0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

108) Error:
test_hsp(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2476448>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

109) Error:
test_midline(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2473aa4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

110) Error:
test_query_frame(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2470034>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

111) Error:
test_query_from(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246edd8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

112) Error:
test_query_seq(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246de4c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

113) Error:
test_query_to(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246c8a8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

114) Error:
test_rfline(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246b5e8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

115) Error:
test_score(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246a710>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

116) Error:
test_seq_f(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x24692e8>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

117) Error:
test_seq_ft(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x24682d0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

118) Error:
test_seq_t(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x24673d0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

119) Error:
test_set_alignment(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x24664e4>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

120) Error:
test_targat_to(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x246484c>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

121) Error:
test_target_frame(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2463960>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

122) Error:
test_target_from(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x2462a74>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

123) Error:
test_target_seq(Bio::TestHMMERReportHsp):
NoMethodError: undefined method `each' for #<String:0x24612f0>
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:270:in `parse_header_data'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/lib/bio/appl/hmmer/report.rb:165:in `initialize'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `new'
    /Users/nakao/Documents/src/Bio/bioruby/current/HEAD/test/unit/bio/appl/hmmer/test_report.rb:201:in `setup'

124) Error:
test_alignment(Bio::TestAlignmentMultiFastaFormat):
ArgumentError: wrong number of arguments(2 for 1)
    /Users/nakao/D
		
トラックバック - http://bioruby.g.hatena.ne.jp/nakao_mitsuteru/20071225