diff options
| -rw-r--r-- | CRESSdna.html | 156 | ||||
| -rw-r--r-- | CRESSresults.html | 102 | ||||
| -rwxr-xr-x[-rw-r--r--] | cgi-bin/classifier.py | 12 | ||||
| -rw-r--r-- | index.html | 169 |
4 files changed, 232 insertions, 207 deletions
diff --git a/CRESSdna.html b/CRESSdna.html new file mode 100644 index 0000000..f037c56 --- /dev/null +++ b/CRESSdna.html @@ -0,0 +1,156 @@ +<!DOCTYPE html> + +<html> +<head> +<style> +* {box-sizing: border-box} +body {font-family: "Lato", sans-serif;} + +/* Style the tab */ +div.tab { + float: left; + border: 1px solid #ccc; + background-color: #f1f1f1; + width: 20%; + height: 250px; +} + +/* Style the buttons inside the tab */ +div.tab button { + display: block; + background-color: inherit; + color: black; + padding: 22px 16px; + width: 100%; + border: none; + outline: none; + text-align: left; + cursor: pointer; + transition: 0.3s; + font-size: 17px; +} + +/* Change background color of buttons on hover */ +div.tab button:hover { + background-color: #ddd; +} + +/* Create an active/current "tab button" class */ +div.tab button.active { + background-color: #1acefc; +} + +/* Style the tab content */ +.tabcontent { + float: left; + padding: 0px 12px; + border: 1px solid #ccc; + width: 80%; + min-height: 250px; +} +</style> +</head> +<body> + +<p>Welcome to CRESSdna.org</p> + +<div class="tab"> + <button class="tablinks" onclick="openTab(event, 'Home')" id="defaultOpen">Home</button> + <button class="tablinks" onclick="openTab(event, 'Taxonomy')">Taxonomy</button> + <button class="tablinks" onclick="openTab(event, 'Contact')">Contact</button> + <button class="tablinks" onclick="openTab(event, 'Results')">Results</button> + </div> + +<div id="Home" class="tabcontent"> + <h3>Home</h3> + <p>Part of the <a href='http://www.nsf.gov/pubs/2010/nsf10513/nsf10513.htm'>National Science Foundation's Assembling the Tree of Life</a>.</p> + <img src='nsf1.jpg' alt='Sponsored with a Grant from the National Science Foundation'> +</div> + +<div id="Taxonomy" class="tabcontent"> + <h3>Taxonomy</h3> + <p>Please enter only one word as the name(no space) and only one Rep sequence</p> + <form action="./cgi-bin/classifier.py" method="post"><br> + <input type="text" name="seqname" value="seqID"><br> + <textarea rows="4" cols="50" name="fasta" input type="submit"> +Enter ONE Rep protein sequence here...</textarea> + <br> + <input type="reset"> + <input type="submit"> +</form> + <p> + <ul> + <li>This classifier requires Rep protein sequence to be:</li> + <ul> + <li>Complete</li> + <li>Unaligned</li> + <li>in FASTA format</li> + </ul> + <p>And has been trained on the following Genera:</p> + <li>Circoviridae</li> + <ul> + <li>Circovirus</li> + <li>Cyclovirus</li> + </ul> + <li>Nanoviridae</li> + <ul> + <li>Babuvirus</li> + <li>Nanovirus</li> + </ul> + <li>Genomoviridae</li> + <ul> + <li>Gemycircularvirus</li> + <li>Gemygorvirus</li> + <li>Gemykibivirus</li> + <li>Gemykolovirus</li> + <li>Gemykrogvirus</li> + <li>Gemyvongvirus</li> + </ul> + <li>Geminiviridae</li> + <ul> + <li>Becurtovirus</li> + <li>Begomovirus</li> + <li>Capulavirus</li> + <li>Curtovirus</li> + <li>Eragrovirus</li> + <li>Grablovirus</li> + <li>Mastrevirus</li> + <li>Turncurtovirus</li> + </ul> + <li>Smacovirus</li> +</ul> </p> +</div> + + +<div id="Contact" class="tabcontent"> + <h3>Contact</h3> + <p>Questions or comments? Send us an email:</p> + <p>email At domain Dot something</p> +</div> + +<div id="Results" class="tabcontent"> + <h3>Results</h3> + <p>Results from Taxonomy prediction</p> +</div> + +<script> +function openTab(evt, tabTitle) { + var i, tabcontent, tablinks; + tabcontent = document.getElementsByClassName("tabcontent"); + for (i = 0; i < tabcontent.length; i++) { + tabcontent[i].style.display = "none"; + } + tablinks = document.getElementsByClassName("tablinks"); + for (i = 0; i < tablinks.length; i++) { + tablinks[i].className = tablinks[i].className.replace(" active", ""); + } + document.getElementById(tabTitle).style.display = "block"; + evt.currentTarget.className += " active"; +} + +// Get the element with id="defaultOpen" and click on it +document.getElementById("defaultOpen").click(); +</script> + +</body> +</html> diff --git a/CRESSresults.html b/CRESSresults.html index 09c552a..47c4227 100644 --- a/CRESSresults.html +++ b/CRESSresults.html @@ -1,51 +1,51 @@ -<!DOCTYPE html>
-
-<html>
-<head>
-
-</head>
-<body>
-
-<h3>Taxonomy Prediction Results</h3>
- <p>Results as Name, predicted Genus, length of sequence: </p><br>
- <input type="text" readonly="true" value={prediction} size="40"/><br><br>
- <p>This classifier will return the best fit of the submitted sequence to the training data.<br>
-Currently included in the training data:<br>
-<li>Circoviridae</li>
- <ul>
- <li>Circovirus</li>
- <li>Cyclovirus</li>
- </ul>
- <li>Nanoviridae</li>
- <ul>
- <li>Babuvirus</li>
- <li>Nanovirus</li>
- </ul>
- <li>Genomoviridae</li>
- <ul>
- <li>Gemycircularvirus</li>
- <li>Gemygorvirus</li>
- <li>Gemykibivirus</li>
- <li>Gemykolovirus</li>
- <li>Gemykrogvirus</li>
- <li>Gemyvongvirus</li>
- </ul>
- <li>Geminiviridae</li>
- <ul>
- <li>Becurtovirus</li>
- <li>Begomovirus</li>
- <li>Capulavirus</li>
- <li>Curtovirus</li>
- <li>Eragrovirus</li>
- <li>Grablovirus</li>
- <li>Mastrevirus</li>
- <li>Turncurtovirus</li>
- </ul>
- <li>Smacovirus</li>
-
- <a href="./www/html/index.html">Return to CRESSdna.org</a>
-</p>
-
-</body>
-</html>
-
+<!DOCTYPE html> + +<html> +<head> + +</head> +<body> + +<h3>Taxonomy Prediction Results</h3> + <p>Results as Name, predicted Genus, length of sequence: </p><br> + <input type="text" readonly="true" value={prediction} size="40"/><br><br> + <p>This classifier will return the best fit of the submitted sequence to the training data.<br> +Currently included in the training data:<br> +<li>Circoviridae</li> + <ul> + <li>Circovirus</li> + <li>Cyclovirus</li> + </ul> + <li>Nanoviridae</li> + <ul> + <li>Babuvirus</li> + <li>Nanovirus</li> + </ul> + <li>Genomoviridae</li> + <ul> + <li>Gemycircularvirus</li> + <li>Gemygorvirus</li> + <li>Gemykibivirus</li> + <li>Gemykolovirus</li> + <li>Gemykrogvirus</li> + <li>Gemyvongvirus</li> + </ul> + <li>Geminiviridae</li> + <ul> + <li>Becurtovirus</li> + <li>Begomovirus</li> + <li>Capulavirus</li> + <li>Curtovirus</li> + <li>Eragrovirus</li> + <li>Grablovirus</li> + <li>Mastrevirus</li> + <li>Turncurtovirus</li> + </ul> + <li>Smacovirus</li> + + <a href="./www/html/CRESSdna.html">Return to CRESSdna.org</a> +</p> + +</body> +</html> + diff --git a/cgi-bin/classifier.py b/cgi-bin/classifier.py index 8f8450b..aa97555 100644..100755 --- a/cgi-bin/classifier.py +++ b/cgi-bin/classifier.py @@ -1,4 +1,8 @@ +<<<<<<< HEAD +#!/home/erik/bin/python3.6m +======= #!/home/erik/bin/python3.6 +>>>>>>> f7d7849fcd6ce02a59db8c5fadc29d1962476493 #import packages to be used from sklearn.svm import SVC @@ -19,7 +23,11 @@ else: name='demo' size=len(alignment[0]) +<<<<<<< HEAD +html = open("./var/www/html/CRESSresults.html") +======= html = open("./www.html/CRESSresults.html") +>>>>>>> f7d7849fcd6ce02a59db8c5fadc29d1962476493 page=html.read() @@ -49,4 +57,8 @@ f.close()""" print (output) +<<<<<<< HEAD quit() +======= +quit() +>>>>>>> f7d7849fcd6ce02a59db8c5fadc29d1962476493 @@ -1,156 +1,13 @@ -<!DOCTYPE html>
-
-<html>
-<head>
-<style>
-* {box-sizing: border-box}
-body {font-family: "Lato", sans-serif;}
-
-/* Style the tab */
-div.tab {
- float: left;
- border: 1px solid #ccc;
- background-color: #f1f1f1;
- width: 20%;
- height: 250px;
-}
-
-/* Style the buttons inside the tab */
-div.tab button {
- display: block;
- background-color: inherit;
- color: black;
- padding: 22px 16px;
- width: 100%;
- border: none;
- outline: none;
- text-align: left;
- cursor: pointer;
- transition: 0.3s;
- font-size: 17px;
-}
-
-/* Change background color of buttons on hover */
-div.tab button:hover {
- background-color: #ddd;
-}
-
-/* Create an active/current "tab button" class */
-div.tab button.active {
- background-color: #1acefc;
-}
-
-/* Style the tab content */
-.tabcontent {
- float: left;
- padding: 0px 12px;
- border: 1px solid #ccc;
- width: 80%;
- min-height: 250px;
-}
-</style>
-</head>
-<body>
-
-<p>Welcome to CRESSdna.org</p>
-
-<div class="tab">
- <button class="tablinks" onclick="openTab(event, 'Home')" id="defaultOpen">Home</button>
- <button class="tablinks" onclick="openTab(event, 'Taxonomy')">Taxonomy</button>
- <button class="tablinks" onclick="openTab(event, 'Contact')">Contact</button>
- <button class="tablinks" onclick="openTab(event, 'Results')">Results</button>
- </div>
-
-<div id="Home" class="tabcontent">
- <h3>Home</h3>
- <p>Part of the <a href='http://www.nsf.gov/pubs/2010/nsf10513/nsf10513.htm'>National Science Foundation's Assembling the Tree of Life</a>.</p>
- <img src='nsf1.jpg' alt='Sponsored with a Grant from the National Science Foundation'>
-</div>
-
-<div id="Taxonomy" class="tabcontent">
- <h3>Taxonomy</h3>
- <p>Please enter only one word as the name(no space) and only one Rep sequence</p>
- <form action="./cgi-bin/classifier.py" method="post"><br>
- <input type="text" name="seqname" value="seqID"><br>
- <textarea rows="4" cols="50" name="fasta" input type="submit">
-Enter ONE Rep protein sequence here...</textarea>
- <br>
- <input type="reset">
- <input type="submit">
-</form>
- <p>
- <ul>
- <li>This classifier requires Rep protein sequence to be:</li>
- <ul>
- <li>Complete</li>
- <li>Unaligned</li>
- <li>in FASTA format</li>
- </ul>
- <p>And has been trained on the following Genera:</p>
- <li>Circoviridae</li>
- <ul>
- <li>Circovirus</li>
- <li>Cyclovirus</li>
- </ul>
- <li>Nanoviridae</li>
- <ul>
- <li>Babuvirus</li>
- <li>Nanovirus</li>
- </ul>
- <li>Genomoviridae</li>
- <ul>
- <li>Gemycircularvirus</li>
- <li>Gemygorvirus</li>
- <li>Gemykibivirus</li>
- <li>Gemykolovirus</li>
- <li>Gemykrogvirus</li>
- <li>Gemyvongvirus</li>
- </ul>
- <li>Geminiviridae</li>
- <ul>
- <li>Becurtovirus</li>
- <li>Begomovirus</li>
- <li>Capulavirus</li>
- <li>Curtovirus</li>
- <li>Eragrovirus</li>
- <li>Grablovirus</li>
- <li>Mastrevirus</li>
- <li>Turncurtovirus</li>
- </ul>
- <li>Smacovirus</li>
-</ul> </p>
-</div>
-
-
-<div id="Contact" class="tabcontent">
- <h3>Contact</h3>
- <p>Questions or comments? Send us an email:</p>
- <p>email At domain Dot something</p>
-</div>
-
-<div id="Results" class="tabcontent">
- <h3>Results</h3>
- <p>Results from Taxonomy prediction</p>
-</div>
-
-<script>
-function openTab(evt, tabTitle) {
- var i, tabcontent, tablinks;
- tabcontent = document.getElementsByClassName("tabcontent");
- for (i = 0; i < tabcontent.length; i++) {
- tabcontent[i].style.display = "none";
- }
- tablinks = document.getElementsByClassName("tablinks");
- for (i = 0; i < tablinks.length; i++) {
- tablinks[i].className = tablinks[i].className.replace(" active", "");
- }
- document.getElementById(tabTitle).style.display = "block";
- evt.currentTarget.className += " active";
-}
-
-// Get the element with id="defaultOpen" and click on it
-document.getElementById("defaultOpen").click();
-</script>
-
-</body>
-</html>
+<!DOCTYPE html> +<html> + <head> + <title>CRESSDNA</title> + </head> +<*> +</*> + <body> + <h1>Circular Rep-Encoding Single Stranded DNA Viruses</h1> + <p>Part of the <a href='http://www.nsf.gov/pubs/2010/nsf10513/nsf10513.htm'>National Science Foundation's Assembling the Tree of Life</a>.</p> + <img src='nsf1.jpg' alt='Sponsored with a Grant from the National Science Foundation'> + </body> +</html> |