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-rwxr-xr-xbin/classifier.py25
-rw-r--r--index.html4
2 files changed, 15 insertions, 14 deletions
diff --git a/bin/classifier.py b/bin/classifier.py
index 0ae13b5..044c6ca 100755
--- a/bin/classifier.py
+++ b/bin/classifier.py
@@ -13,7 +13,7 @@ import cgi, cgitb
# |
cgitb.enable()
form=cgi.FieldStorage()
-alignment = form.getvalue('fasta')
+alignment = str(form.getvalue('fasta'))
if alignment.startswith(">"): #naive check for FASTA format
list=alignment.split(">")
book={}
@@ -51,8 +51,8 @@ else:
AAs=['a','c','d','e','f','g','h','i','k','l','m','n','p','q','r','s','t','v','w','y']
#load the classifier and scaler
-clf=joblib.load("./cgi-bin/SVM_linear_aa_clf.pkl")
-StSc=joblib.load("./cgi-bin/UniqRepsGemys_6089_StSCALER.pkl")
+clf=joblib.load("SVM_linear_aa_clf.pkl")
+StSc=joblib.load("UniqRepsGemys_6089_StSCALER.pkl")
cv=CountVectorizer(analyzer='char',ngram_range=(1,1),vocabulary=AAs)
#initialize text data vectorizer
@@ -69,12 +69,14 @@ predictions=clf.predict(X)
# Build HTML table of results \
# \_______________________________________________________
# |
-results=""""""
-for k in len(seqList):
- results+="""<tr><td>{0}</td><td>{1}</td><td>{2}</td></tr>""".format(nameList[k],lenList[k],predictions[k])
+results=""""""
if "demo" in nameList:
results+="""<p>There seems to have been an error.<br>If you are expecting more than one prediction or
- do not see the name you entered please try the submission form again, making sure that the input is in FASTA format."""
+ do not see the name you entered please try the submission form again, making sure that the input is in FASTA format."""
+else:
+ for k in len(seqList):
+ results+="""<tr><td>{0}</td><td>{1}</td><td>{2}</td></tr>""".format(nameList[k],lenList[k],predictions[k])
+
#----------------------------------------------\
# Build output page \
@@ -82,13 +84,12 @@ if "demo" in nameList:
# |
#build output page parts
#Header and CSS Style bits
-header="""
-<!DOCTYPE html>
+header="""<!DOCTYPE html>
<html>
<head>
<style>
-* {box-sizing: border-box}
+*{box-sizing: border-box;}
body {font-family: "Lato", sans-serif;}
/* Style the tab */
div.tab {
@@ -307,7 +308,7 @@ footer="""
page=header+body1+results+body2+footer
#send the output as html
-output = page.format()
-print (output)
+#output = page.format()
+print (page)
quit()
diff --git a/index.html b/index.html
index 6fbf4a8..28e1893 100644
--- a/index.html
+++ b/index.html
@@ -3,7 +3,7 @@
<html>
<head>
<style>
-* {box-sizing: border-box}
+*{box-sizing: border-box;}
body {font-family: "Lato", sans-serif;}
/* Style the tab */
div.tab {
@@ -64,7 +64,7 @@ div.tab button.active {
<div id="Taxonomy" class="tabcontent">
<h3>Taxonomy</h3>
- <form action="bin/classifier.py" method="post"><br>
+ <form action="./bin/classifier.py" method="post"><br>
<textarea rows="4" cols="50" name="fasta" input type="submit">
>Demo
MPSKKSGPQPHKRWVFTLNNPSEEEKNKIRELPISLFDYFVCGEEGLEEGRTAHLQGFANFAKKQTFNKVKWYFGARCHIEKAKGTDQQNKEYCSKEGHILIECGAPRNQGKRSDLSTAYFDYQQSGPPGMVLLNCCPSCRSSLSEDYYFAILEDCWRTINGGTRRPI</textarea>