Stat collector updates to work with JABA 2 input & output files

[jabaws.git] / conf / settings / AAConParameters.xml

diff --git a/conf/settings/AAConParameters.xml b/conf/settings/AAConParameters.xml
index 2274cd3..e2d6543 100644 (file)
--- a/conf/settings/AAConParameters.xml
+++ b/conf/settings/AAConParameters.xml
@@ -11,14 +11,14 @@
                Negative results first converted to positive by adding a greatest absolute \r
                result value.</description>\r
                <optionNames>-n</optionNames>\r
-               <furtherDetails>http://www.compbio.dundee.ac.uk/jabaws/prog_docs/aacon.txt</furtherDetails>\r
+               <furtherDetails>prog_docs/aacon.txt</furtherDetails>\r
        </options>\r
        <prmSeparator>=</prmSeparator>\r
        <parameters>\r
                <name>Calculation method</name>\r
                <description>The method of the calculation to use</description>\r
                <optionNames>-m</optionNames>\r
-               <furtherDetails>http://www.compbio.dundee.ac.uk/jabaws/prog_docs/aacon.txt</furtherDetails>\r
+               <furtherDetails>prog_docs/aacon.txt</furtherDetails>\r
                <defaultValue>SHENKIN</defaultValue>\r
         <possibleValues>KABAT</possibleValues>\r
         <possibleValues>JORES</possibleValues>\r
@@ -43,7 +43,7 @@
                <name>SMERFS Window Width</name>\r
                <description>The width of the window for SMERFS. Optional, defaults to 7</description>\r
                <optionNames>-smerfsWW</optionNames>\r
-               <furtherDetails>http://www.compbio.dundee.ac.uk/jabaws/prog_docs/aacon.txt</furtherDetails>\r
+               <furtherDetails>prog_docs/aacon.txt</furtherDetails>\r
                <defaultValue>7</defaultValue>\r
                <validValue>\r
                <type>Integer</type>\r
@@ -59,7 +59,7 @@
                MAX_SCORE - gives the column the highest score of all the windows it \r
                belongs to. Optional defaults to MID_SCORE. </description>\r
                <optionNames>-smerfsCS</optionNames>\r
-               <furtherDetails>http://www.compbio.dundee.ac.uk/jabaws/prog_docs/aacon.txt</furtherDetails>\r
+               <furtherDetails>prog_docs/aacon.txt</furtherDetails>\r
                <defaultValue>MID_SCORE</defaultValue>\r
                <possibleValues>MAX_SCORE</possibleValues>\r
         <possibleValues>MID_SCORE</possibleValues>\r
@@ -68,7 +68,7 @@
                <name>SMERFS Gap Threshhold</name>\r
                <description>a gap percentage cutoff - a float greater than 0 and smaller or equal 1. Optional defaults to 0.1</description>\r
                <optionNames>-smerfsGT</optionNames>\r
-               <furtherDetails>http://www.compbio.dundee.ac.uk/jabaws/prog_docs/aacon.txt</furtherDetails>\r
+               <furtherDetails>prog_docs/aacon.txt</furtherDetails>\r
                <defaultValue>0.1</defaultValue>\r
                <validValue>\r
                <type>Float</type>\r