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require File.join(File.expand_path(File.dirname(__FILE__)),"setup.rb")
#TODO: check 4store entries/errors
class UploadTest < Test::Unit::TestCase
def setup
@tmpdir = File.join(File.dirname(__FILE__),"tmp")
FileUtils.mkdir_p @tmpdir
FileUtils.rm_r Dir[File.join @tmpdir, '*']
end
def test_01_get_all
response = `curl -Lk -H "subjectid:#{@@subjectid}" -i #{$toxbank_investigation[:uri]}`
assert_match /200/, response
end
def test_02_get_inexisting
response = `curl -Lk -H "Accept:text/uri-list" -i -H "subjectid:#{@@subjectid}" #{$toxbank_investigation[:uri]}/foo`.chomp
assert_match /401/, response
response = `curl -Lk -H "Accept:application/rdf+xml" -i -H "subjectid:#{@@subjectid}" #{$toxbank_investigation[:uri]}/999999/metadata`.chomp
assert_match /401/, response
end
def test_03_valid_zip_upload
# upload
["BII-I-1.zip","E-MTAB-798_philippe.zip"].each do |f|
file = File.join File.dirname(__FILE__), "data/toxbank-investigation/valid", f
response = `curl -Lk -X POST -i -F file="@#{file};type=application/zip" -H "subjectid:#{@@subjectid}" #{$toxbank_investigation[:uri]}`.chomp
assert_match /202/, response
uri = response.split("\n")[-1]
t = OpenTox::Task.new(uri)
t.wait
assert_equal true, t.completed?
assert_match t.hasStatus, "Completed"
uri = t.resultURI
metadata = `curl -Lk -H accept:application/rdf+xml -H "subjectid:#{@@subjectid}" #{uri}/metadata`
assert_match /#{uri}/, metadata
zip = File.join @tmpdir,"tmp.zip"
`curl -Lk -H "Accept:application/zip" -H "subjectid:#{@@subjectid}" #{uri} > #{zip}`
`unzip -o #{zip} -d #{@tmpdir}`
files = `unzip -l #{File.join File.dirname(__FILE__),"data/toxbank-investigation/valid",f}|grep txt|cut -c 31- | sed 's#^.*/##'`.split("\n")
files.each{|f| assert_equal true, File.exists?(File.join(File.expand_path(@tmpdir),f)) }
# get isatab files
urilist = `curl -Lk -H "subjectid:#{@@subjectid}" -H "Accept:text/uri-list" #{$toxbank_investigation[:uri]}`.split("\n")
urilist.each do |uri|
unless uri.match(/[n3|zip]$/)
response = `curl -Lk -i -H "Accept:text/tab-separated-values" -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /HTTP\/1.1 200 OK/, response.to_s.encode!('UTF-8', 'UTF-8', :invalid => :replace)
end
end
# delete
response = `curl -Lk -i -X DELETE -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /200/, response
response = `curl -Lk -i -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /401/, response
response = `curl -I -Lk -i -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /404/, response
end
end
def test_04_invalid_zip_upload
file = File.join File.dirname(__FILE__), "data/toxbank-investigation/invalid/isa_TB_ACCUTOX.zip"
response = `curl -Lk -X POST -i -F file="@#{file};type=application/zip" -H "subjectid:#{@@subjectid}" #{$toxbank_investigation[:uri]}`.chomp
assert_match /202/, response
uri = response.split("\n")[-1]
t = OpenTox::Task.new(uri)
t.wait
assert_match t.hasStatus, "Error"
# TODO: test errorReport, rdf output of tasks has to be fixed for that purpose
end
=begin
def test_rest_client_wrapper
["BII-I-1.zip"].each do |f|
file = File.join File.dirname(__FILE__), "toxbank-investigation","data/toxbank-investigation/valid", f
investigation_uri = OpenTox::RestClientWrapper.post $toxbank_investigation[:uri], {:file => File.read(file),:name => file}, {:content_type => "application/zip", :subjectid => @@subjectid}
puts investigation_uri
zip = File.join @tmpdir,"tmp.zip"
#puts "curl -Lk -H 'Accept:application/zip' -H 'subjectid:#{@@subjectid}' #{uri} > #{zip}"
`curl -Lk -H "Accept:application/zip" -H "subjectid:#{@@subjectid}" #{uri} > #{zip}`
`unzip -o #{zip} -d #{@tmpdir}`
files = `unzip -l toxbank-investigation/data/toxbank-investigation/valid/#{f}|grep txt|cut -c 31- | sed 's#^.*/##'`.split("\n")
files.each{|f| assert_equal true, File.exists?(File.join(File.expand_path(@tmpdir),f)) }
# get isatab files
`curl -Lk -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`.split("\n").each do |u|
unless u.match(/n3$/)
response = `curl -Lk -i -H Accept:text/tab-separated-values -H "subjectid:#{@@subjectid}" #{u}`
assert_match /HTTP\/1.1 200 OK/, response.to_s.encode!('UTF-8', 'UTF-8', :invalid => :replace)
end
end
# delete
response = `curl -Lk -i -X DELETE -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /200/, response
response = `curl -Lk -i -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /404/, response
end
end
=end
=begin
def test_ruby_api
["BII-I-1.zip"].each do |f|
file = File.join File.dirname(__FILE__), "data/toxbank-investigation/valid", f
investigation = OpenTox::Investigation.create $toxbank_investigation[:uri], :file => file, :headers => {:content_type => "application/zip", :subjectid => @@subjectid}
zip = File.join @tmpdir,"tmp.zip"
#puts "curl -Lk -H 'Accept:application/zip' -H 'subjectid:#{@@subjectid}' #{uri} > #{zip}"
`curl -Lk -H "Accept:application/zip" -H "subjectid:#{@@subjectid}" #{uri} > #{zip}`
`unzip -o #{zip} -d #{@tmpdir}`
files = `unzip -l data/toxbank-investigation/valid/#{f}|grep txt|cut -c 31- | sed 's#^.*/##'`.split("\n")
files.each{|f| assert_equal true, File.exists?(File.join(File.expand_path(@tmpdir),f)) }
# get isatab files
`curl -Lk -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`.split("\n").each do |u|
unless u.match(/n3$/)
response = `curl -Lk -i -H Accept:text/tab-separated-values -H "subjectid:#{@@subjectid}" #{u}`
assert_match /HTTP\/1.1 200 OK/, response.to_s.encode!('UTF-8', 'UTF-8', :invalid => :replace)
end
end
# delete
response = `curl -Lk -i -X DELETE -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /200/, response
response = `curl -Lk -i -H "Accept:text/uri-list" -H "subjectid:#{@@subjectid}" #{uri}`
assert_match /404/, response
end
end
=end
end
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