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Revised text for home and Data Submission pages and tutorial.

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commit 30d6da198e59429974af7409557157d94765f2cf 1 parent 33bf762
@Dave-Matthews authored
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38 curator_data/instructions.php
@@ -6,8 +6,8 @@
?>
<style type="text/css">
+ul {padding-left: 1.5em}
ul ul ul {list-style-type: circle}
-ul {margin-left:0.5em}
</style>
<div id="primaryContentContainer">
@@ -22,43 +22,34 @@
<ul>
<li><a href="curator_data/examples/T3/Steps_in_Data_Submission_to_T3.docx"><b>Instructions</b></a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/Steps_in_Data_Submission_to_T3.docx")) ?>)</font>
- <br>Rules for filling in the templates, and sequence of submission
+ - Rules for filling in the templates, and sequence of submission
<li><b>Data templates</b>
<ul>
- <li><b>Germplasm lines</b><br>Name, properties, pedigree, GRIN accession... [ <a href="curator_data/tutorial/T3_Lesson1_LineUpload.html">Tutorial</a> ]
+ <li><b>Germplasm lines</b>
+ - Name, properties, pedigree, GRIN accession... [ <a href="curator_data/tutorial/T3_Lesson1_LineUpload.html">Tutorial</a> ]
<ul>
<li><a href="curator_data/examples/T3/LineSubmissionForm_Wheat.xls">Wheat</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/LineSubmissionForm_Wheat.xls")) ?>)</font>
<li><a href="curator_data/examples/T3/LineSubmissionForm_Barley.xls">Barley</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/LineSubmissionForm_Barley.xls")) ?>)</font>
<li><a href="curator_data/examples/T3/T3NameConversion.xlsm">Macros</a> for converting line names to T3 format
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/T3NameConversion.xlsm")) ?>)</font>
</ul>
<li><b>Phenotyping</b>
<ul>
<li><a href="curator_data/examples/T3/TrialSubmissionForm.xls">Experiment annotation</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/TrialSubmissionForm.xls")) ?>)</font>
- <br>Location, planting date, experimental design...
+ - Location, planting date, experimental design...
<li><a href="curator_data/examples/T3/PhenotypeSubmissionForm.xls">Experiment results</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/PhenotypeSubmissionForm.xls")) ?>)</font>
- <br>Values for all traits for test lines and checks, summary statistics
+ - Values for all traits for test lines and checks, summary statistics
<li><a href="curator_data/examples/trait_template.xls">Traits</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/trait_template.xls")) ?>)</font>
- <br>Within TCAP the traits, protocols, units will be specified by the project.
+ - Within T-CAP the traits, protocols and units will be specified by the project.
</ul>
<li><b>Genotyping</b>
<ul>
<li><a href="curator_data/examples/T3/Genotyping_ID_Submission_Form.xls">Sample submission</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/T3/Genotyping_ID_Submission_Form.xls")) ?>)</font>
<li><a href="curator_data/examples/Geno_Annotation_Sample.txt">Experiment annotation</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/Geno_Annotation_Sample.txt")) ?>)</font>
- <br>Description of the assay
+ - Description of the assay
<li><a href="curator_data/examples/genotypeData_THT.txt">Experiment results</a>
- <font size= -2>(<?php echo date("dMY", filemtime("examples/genotypeData_THT.txt")) ?>)</font>
- <br>Table of alleles for lines x markers
- <li>Markers <font size= -2>(<?php echo date("dMY", filemtime("examples/Marker_import_sample4.txt")) ?>)</font>
+ - Table of alleles for lines x markers
+ <li>Markers
<br><a href="curator_data/examples/Generic_SNP.txt">Sequence</a>,
<a href="curator_data/examples/mapupload_example.txt">map location</a>,
<a href="curator_data/examples/Marker_import_sample4.txt">gene function</a>
@@ -69,11 +60,10 @@
<p>Once filled in, the resulting Excel files are to be uploaded
directly into the T3 software. Some values are checked for
validity, most are not. Some seemingly optional rows at the top
- aren't. Errors in data you've already loaded in T3 can probably
- be corrected by editing your file and loading it again. This
- feature and hasn't been tested for all cases. If it fails please
- <a href="feedback.php">report the problem</a>.
-
+ aren't. Errors in data you've already loaded in T3 can usually be
+ corrected by editing your file and loading it again. In cases
+ where this doesn't work please <a href="feedback.php">contact
+ us</a> to make the corrections.
</div></div></div>
<?php
View
7 curator_data/tutorial/T3_Lesson1_LineUpload.html
@@ -179,13 +179,14 @@
<p>
<b>Click</b> 'Accept' to load the data into T3.
<p>
-
-If there are problems with the data, errors produce messages that should clearly indicate the editing needed. <br> Note that if an error occurs, nothing has loaded. <br> Occasionally an error can occur after the 'Accept' button is clicked.<br> Please contact the development team if this happens.
-<p>
<br>&nbsp;
<b>Figure 9. Line Upload Report</b> <br>
<img src="images/uploadresults2.jpg" width="1000" height="761" alt="" border="0" align="" />
<p>
+If there are problems with the data, errors produce messages that should clearly indicate the editing needed. <br> Note that if an error occurs, nothing has loaded. <br> Occasionally an error can occur after the 'Accept' button is clicked.<br> Please contact the development team if this happens.
+<p>
+
+<p>
<hr>
<p>
Thank you for your assistance to build The Triticeae Toolbox!
View
13 index.php
@@ -15,14 +15,13 @@
<p>T3 is the web portal for the data generated by
the <a href="http://triticeaecap.org/">Triticeae Coordinated
- Agricultural Project</a> (CAP), funded by the National Institute for
- Food and Agriculture (NIFA) of the United States Department of
- Agriculture (USDA). T3 contains SNP, phenotypic, and pedigree data
- from wheat and barley germplasm in the Triticeae CAP.
+ Agricultural Project</a> (T-CAP), funded by the National Institute for
+ Food and Agriculture (<a href="http://www.csrees.usda.gov/">NIFA</a>) of the United States Department of
+ Agriculture (<a href="http://www.usda.gov">USDA</a>). T3 contains SNP, phenotypic, and pedigree data
+ from wheat and barley germplasm in the Triticeae CAP. <a href="about.php">More...</a>
<p><b>Participants</b>: The templates for submitting your data about
- phenotype trials, phenotype results, and the lines tested
- are here.
+ phenotype trials, phenotype results, and the lines tested are here.
<br>
<input type="Button" value="Data submission" onclick="window.open('curator_data/instructions.php','_self')">
@@ -61,7 +60,7 @@
<tr><td>
<select onchange="window.open('<?php echo $config['base_url']; ?>search_phenotype.php?table=experiments&pheno_name='+this.options[this.selectedIndex].value,'_top')">
- <option selected value="">Search by Phenotype</option>
+ <option selected value="">Search by Trait</option>
<?php
$sql = "select distinct phenotypes_name from phenotypes
order by phenotypes_name";
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