diff --git a/mutalyzer/templates/exercise.html b/mutalyzer/templates/exercise.html
index 4da5215af2fb9cb56139127dfc45279c33cf9465..07eef5207b8fe470bad23164a87c3dbb703a2dd9 100644
--- a/mutalyzer/templates/exercise.html
+++ b/mutalyzer/templates/exercise.html
@@ -76,7 +76,7 @@
well-annotated genomic reference sequence. (See
<a href="http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=Nucleotide&dopt=GenBank&val=16944057">AL449423.14</a> or NCBI's new
<a href="http://www.ncbi.nlm.nih.gov/RefSeq/RSG/">RefSeqGene</a>
- records for example). Alternatively, you can use the GenBank Uploader
+ records for example). Alternatively, you can use the Reference File Loader
options described below to obtain a suitable genomic reference
sequence. If the annotation of this record contains information about
the transcript specified by the NM_ number, Mutalyzer can use the
@@ -219,7 +219,7 @@
</p>
<p> </p>
<p>
- 4) The Mutalyzer reference sequence uploader
+ 4) The Mutalyzer reference file loader
</p>
<p>
<span style="font-size: 12.0pt; font-family: Times New Roman">Users can
@@ -248,7 +248,7 @@
</p>
<p>
<i>
- <span style="font-family: Times New Roman">Click the GenBank Uploader
+ <span style="font-family: Times New Roman">Click the Reference File Loader
link in
</span> the list on the left side of any Mutalyzer window to see its
options.
@@ -257,7 +257,7 @@
<p>
<span style="font-family: Times New Roman">
If you already have a well-annotated GenBank file on your computer or
- stored on a web server, the first two GenBank uploader options
+ stored on a web server, the first two Reference File Loader options
facilitate easy uploading and will return the
</span>
<span style="font-size: 12.0pt; font-family: Times New Roman">
diff --git a/mutalyzer/templates/faq.html b/mutalyzer/templates/faq.html
index acf5217fe47ccdede8b1a6ed04fc46f8dbce92fe..d2aa9eceb5a5f27f4f4170246ea445ad49cb6846 100644
--- a/mutalyzer/templates/faq.html
+++ b/mutalyzer/templates/faq.html
@@ -67,7 +67,7 @@
try to retrieve the underlying sequences to check the sequence variant,
but it may lose track of the corresponding positions due to the
different levels of assembly and return errors. Users are advised
- circumvent this problem by using the Genbank uploader when (part of)
+ circumvent this problem by using the Reference File Loader when (part of)
these NC_ or NT references are used. The
<a href="http://www.humgen.nl/mutalyzer_exercise.html">
Mutalyzer exercise</a> provides more detailed information.
@@ -116,7 +116,7 @@
</p>
<p>
If you are the curator of an LSDB in need of an appropriate genomic
- reference sequence, you can use the options on the GenBank uploader
+ reference sequence, you can use the options on the Reference File Loader
page to select a genomic reference sequence. More information about the
selection and modification of reference sequences can be found in the
<a href="http://www.humgen.nl/mutalyzer_exercise.html">
@@ -161,7 +161,7 @@
</p>
<h3>
- Why does the Genbank uploader not work with my local file or the URL
+ Why does the Reference File Loader not work with my local file or the URL
provided?
</h3>
<p>
diff --git a/mutalyzer/templates/gbupload.html b/mutalyzer/templates/gbupload.html
index 7ed6d0af66534179c05da1db57818bc9d65fe0b5..28eaa5276c30e7017973b776671e188f8745b9c9 100644
--- a/mutalyzer/templates/gbupload.html
+++ b/mutalyzer/templates/gbupload.html
@@ -11,8 +11,8 @@
updateVisibility();
}
</script>
- <center><h3>Reference Sequence Uploader</h3></center>
- The Reference Sequence Uploader allows you to use your own reference
+ <center><h3>Reference File Loader</h3></center>
+ The Reference File Loader allows you to use your own reference
sequence when no appropriate RefSeq, GenBank or LRG file is available.
<br>
Please select one of the options below to upload or retrieve your reference
@@ -126,7 +126,7 @@
<div tal:condition = "UD">
<b>Output:</b><br>
<br>
- Your reference sequence was uploaded successfully.<br>
+ Your reference sequence was loaded successfully.<br>
You now can use mutalyzer with the following accession number as
reference: <b tal:content = "UD"></b><br>
<a tal:attributes = "href string:Reference/${UD}.gb">
diff --git a/mutalyzer/templates/help.html b/mutalyzer/templates/help.html
index 2b4ffae5e388653b16dbfd13ed2d4717bf7f1b38..c6c7f4fdb17af28e089bd6cc6e87505cade9c30e 100644
--- a/mutalyzer/templates/help.html
+++ b/mutalyzer/templates/help.html
@@ -63,7 +63,7 @@
with the Name checker
</p>
<p>
- - <a href="#GenBankUploader">GenBank Uploader</a>: allows you to
+ - <a href="#GenBankUploader">Refrence File Loader</a>: allows you to
upload and use your own reference sequence.
</p>
<p>
@@ -112,7 +112,7 @@
user-defined files in GenBank format, including slices of chromosomal
reference sequences. These files are specified by unique
<i><a href="#UD">UD identifiers</a></i>, which are returned by Mutalyzer
- after upload (See the <a href="#GenBankUploader">GenBank Uploader</a>
+ after upload (See the <a href="#GenBankUploader">Reference File Loader</a>
section for more information).<br>
</p>
<p>
@@ -132,7 +132,7 @@
LRG_1). The <a href="http://www.lrg-sequence.org/"> LRG website</a>
lists existing LRG sequences and has an
<a href="ftp://ftp.ebi.ac.uk/pub/databases/lrgex/">FTP site</a> for
- downloading LRGs. To maintain LRG stability, Mutalyzer's uploader does
+ downloading LRGs. To maintain LRG stability, Mutalyzer's Reference File Loader does
not accept user-defined LRG files.
</p>
@@ -734,7 +734,7 @@
<hr>
- <h3>GenBank Uploader Help<a name="GenBankUploader"></a></h3>
+ <h3>Reference File Loader Help<a name="GenBankUploader"></a></h3>
<p>
Users can upload their own reference sequence file in
<a href="http://www.ncbi.nlm.nih.gov/Sitemap/samplerecord.html"
@@ -754,7 +754,7 @@
>these instructions</a>.
</p>
<p>
- Uploader options:
+ Loader options:
</p>
<p>
<b>The reference sequence file is a local file</b>
@@ -857,14 +857,14 @@
</p>
<div style="padding-left:20px; width:400px">
<p>
- Your reference sequence was uploaded successfully. You now can use
+ Your reference sequence was loaded successfully. You now can use
mutalyzer with the following accession number as reference:
UD_127955523176 <br>
Download this reference sequence.
</p>
</div>
<p>
- The GenBank uploader uses JavaScript to change the form depending on
+ The Reference File Loader uses JavaScript to change the form depending on
the selected option. In Internet Explorer, forms may not be displayed
correctly. Adding Mutalyzer to your trusted sites is one option to
solve this.
@@ -895,7 +895,7 @@
<a href="http://www.hgvs.org/mutnomen/"
>standard human sequence variation nomenclature</a>. When trying to
retrieve genomic reference sequences using gene symbols with the
- Genbank uploader or when specifying a particular gene in a genomic
+ Reference File Loader or when specifying a particular gene in a genomic
reference sequence, the gene symbol should be similar to that used in
the (genome) sequence annotation.
</p>
diff --git a/mutalyzer/templates/index.html b/mutalyzer/templates/index.html
index 329d53a3875ac2055cc7749102e6c4507921b830..6cab60e15e89ef63448b1205595153cce3de1cf8 100644
--- a/mutalyzer/templates/index.html
+++ b/mutalyzer/templates/index.html
@@ -32,7 +32,7 @@
versa.
</li>
<li>
- The <a href = "upload">GenBank Uploader</a> allows you to upload and
+ The <a href = "upload">Reference File Loader</a> allows you to load and
use your own reference sequence.
</li>
<li>
diff --git a/mutalyzer/templates/menu.html b/mutalyzer/templates/menu.html
index 38f62e04e4012b1116508458fde703b4127dc25e..9d94389cb9f6569270d2d8321b86e7622fa97601 100644
--- a/mutalyzer/templates/menu.html
+++ b/mutalyzer/templates/menu.html
@@ -298,7 +298,7 @@
'upload');"
onmouseout="navDeAct('base/images/bullitdonker.gif',
'upload');"
- class="vertnavsub">GenBank Uploader</a>
+ class="vertnavsub">Reference File Loader</a>
</td>
</tr>
diff --git a/tests/test_website.py b/tests/test_website.py
index 1121cadd8b1c8030c7aa7b8efce70a1f71ffda95..61a7206ba4c2565311161a0f544d720c7e79cbcc 100644
--- a/tests/test_website.py
+++ b/tests/test_website.py
@@ -605,7 +605,7 @@ facilisi."""
form.set('bestandsveld', ('test_upload.gb',
open(test_genbank_file, 'r').read()))
r = form.submit()
- r.mustcontain('Your reference sequence was uploaded successfully.')
+ r.mustcontain('Your reference sequence was loaded successfully.')
def test_upload_local_file_invalid(self):
"""