Re: [galaxy-dev] Group parameters
Hi, I assume you mean to group the parameters visually. What I have seen people doing is adding HTML code to the value of the label attribute of a <param> tag set, like ending the label with e.g. "<br/><hr>". Otherwise, if the two groups of parameters are mutually exclusive, you can use the <conditional> tag set. cheers, Joachim Message: 10 Date: Sat, 13 Oct 2012 12:07:03 -0300 From: Alfredo Guilherme Silva Souza<alfredo.bioinformatics@gmail.com> To:galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] Group parameters Message-ID: <CAL39R3o+JupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U+ZCg@mail.gmail.com> Content-Type: text/plain; charset="iso-8859-1" Hello I'm needing some grouping parameters into a tool that I'm developing, so I did not find any answers in the wiki galaxy. Attached is a picture with the example of the way that the parameters are in my tool currently, and the manner in which I need to leave. Thank you. -- Joachim Jacob, PhD Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib
Hello Joachim, I did the test here, but there appears no effect when I add tags to label the value you entered. Do you have any examples? Maybe I might be doing wrong. Hugs. 2012/10/15 Joachim Jacob <joachim.jacob@vib.be>
Hi,
I assume you mean to group the parameters visually. What I have seen people doing is adding HTML code to the value of the label attribute of a <param> tag set, like ending the label with e.g. "<br/><hr>".
Otherwise, if the two groups of parameters are mutually exclusive, you can use the <conditional> tag set.
cheers, Joachim
Message: 10 Date: Sat, 13 Oct 2012 12:07:03 -0300 From: Alfredo Guilherme Silva Souza<alfredo.bioinformatics@**gmail.com<alfredo.bioinformatics@gmail.com>
To:galaxy-dev@lists.bx.psu.edu Subject: [galaxy-dev] Group parameters Message-ID: <CAL39R3o+**JupW225QZ7q4mqf8wMX3MbsmjtnLzA** 2XqDis5U+ZCg@mail.gmail.com<CAL39R3o%2BJupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U%2BZCg@mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"
Hello
I'm needing some grouping parameters into a tool that I'm developing, so I did not find any answers in the wiki galaxy.
Attached is a picture with the example of the way that the parameters are in my tool currently, and the manner in which I need to leave.
Thank you.
-- Joachim Jacob, PhD
Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib
-- *Alfredo Guilherme* * *
Hi, You might have a look to the GMAP aligner wrapper in the toolshed http://toolshed.g2.bx.psu.edu/. Apparently you have to use the html codes for the symbols, instead of the symbols themselves GMAP example: label="<H2>Input Sequences</H2>Select an mRNA or EST dataset to map" /> Cheers, Joachim Joachim Jacob, PhD Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib On 10/15/2012 03:41 PM, Alfredo Guilherme Silva Souza wrote:
Hello Joachim,
I did the test here, but there appears no effect when I add tags to label the value you entered.
Do you have any examples? Maybe I might be doing wrong.
Hugs.
2012/10/15 Joachim Jacob <joachim.jacob@vib.be <mailto:joachim.jacob@vib.be>>
Hi,
I assume you mean to group the parameters visually. What I have seen people doing is adding HTML code to the value of the label attribute of a <param> tag set, like ending the label with e.g. "<br/><hr>".
Otherwise, if the two groups of parameters are mutually exclusive, you can use the <conditional> tag set.
cheers, Joachim
Message: 10 Date: Sat, 13 Oct 2012 12:07:03 -0300 From: Alfredo Guilherme Silva Souza<alfredo.bioinformatics@gmail.com <mailto:alfredo.bioinformatics@gmail.com>> To:galaxy-dev@lists.bx.psu.edu <mailto:To%3Agalaxy-dev@lists.bx.psu.edu> Subject: [galaxy-dev] Group parameters Message-ID:
<CAL39R3o+JupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U+ZCg@mail.gmail.com <mailto:CAL39R3o%2BJupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U%2BZCg@mail.gmail.com>> Content-Type: text/plain; charset="iso-8859-1"
Hello
I'm needing some grouping parameters into a tool that I'm developing, so I did not find any answers in the wiki galaxy.
Attached is a picture with the example of the way that the parameters are in my tool currently, and the manner in which I need to leave.
Thank you.
-- Joachim Jacob, PhD
Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 <tel:%2B32%209%20244.66.34> Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib
--
/*Alfredo Guilherme*/
/* */
Very Good! It worked, it helped me a lot. Thank you. 2012/10/15 Joachim Jacob <joachim.jacob@vib.be>
Hi,
You might have a look to the GMAP aligner wrapper in the toolshed http://toolshed.g2.bx.psu.edu/**. Apparently you have to use the html codes for the symbols, instead of the symbols themselves GMAP example:
label="<H2>Input Sequences</H2>Select an mRNA or EST dataset to map" />
Cheers, Joachim
Joachim Jacob, PhD
Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib
On 10/15/2012 03:41 PM, Alfredo Guilherme Silva Souza wrote:
Hello Joachim,
I did the test here, but there appears no effect when I add tags to label the value you entered.
Do you have any examples? Maybe I might be doing wrong.
Hugs.
2012/10/15 Joachim Jacob <joachim.jacob@vib.be <mailto: joachim.jacob@vib.be>>
Hi,
I assume you mean to group the parameters visually. What I have seen people doing is adding HTML code to the value of the label attribute of a <param> tag set, like ending the label with e.g. "<br/><hr>".
Otherwise, if the two groups of parameters are mutually exclusive, you can use the <conditional> tag set.
cheers, Joachim
Message: 10 Date: Sat, 13 Oct 2012 12:07:03 -0300 From: Alfredo Guilherme Silva Souza<alfredo.bioinformatics@**gmail.com<alfredo.bioinformatics@gmail.com> <mailto:alfredo.**bioinformatics@gmail.com<alfredo.bioinformatics@gmail.com>
To:galaxy-dev@lists.bx.psu.edu <mailto:To%3Agalaxy-dev@lists.**bx.psu.edu<To%253Agalaxy-dev@lists.bx.psu.edu>
Subject: [galaxy-dev] Group parameters Message-ID: <CAL39R3o+**JupW225QZ7q4mqf8wMX3MbsmjtnLzA** 2XqDis5U+ZCg@mail.gmail.com<CAL39R3o%2BJupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U%2BZCg@mail.gmail.com><mailto: CAL39R3o%**2BJupW225QZ7q4mqf8wMX3MbsmjtnL**zA2XqDis5U%2BZCg@mail.gmail.** com<CAL39R3o%252BJupW225QZ7q4mqf8wMX3MbsmjtnLzA2XqDis5U%252BZCg@mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"
Hello
I'm needing some grouping parameters into a tool that I'm developing, so I did not find any answers in the wiki galaxy.
Attached is a picture with the example of the way that the parameters are in my tool currently, and the manner in which I need to leave.
Thank you.
-- Joachim Jacob, PhD
Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 <tel:%2B32%209%20244.66.34>
Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib
--
/*Alfredo Guilherme*/
/* */
-- *Alfredo Guilherme* * *
Be aware that this may not work in future versions of Galaxy, and probably won't work in some places already (e.g. trackster). If this is a common need, one option would be to create a new type of grouping construct that would simply be a labeled group. In the config this would be: <group name="group1" label="First group of parameters" collapsable="true" collapsed="true"> <param>...</param> ... </group> (collapsed/collapsable would configure whether the group can be hidden and is hidden by default, this would be a more natural way to define commonly used vs all parameters for example). -- jt On Mon, Oct 15, 2012 at 10:11 AM, Joachim Jacob <joachim.jacob@vib.be> wrote:
You might have a look to the GMAP aligner wrapper in the toolshed http://toolshed.g2.bx.psu.edu/. Apparently you have to use the html codes for the symbols, instead of the symbols themselves GMAP example:
label="<H2>Input Sequences</H2>Select an mRNA or EST dataset to map" />
+1 for the <group> tag. Joachim Jacob, PhD Rijvisschestraat 120, 9052 Zwijnaarde Tel: +32 9 244.66.34 Bioinformatics Training and Services (BITS) http://www.bits.vib.be @bitsatvib On 10/15/2012 06:50 PM, James Taylor wrote:
Be aware that this may not work in future versions of Galaxy, and probably won't work in some places already (e.g. trackster).
If this is a common need, one option would be to create a new type of grouping construct that would simply be a labeled group. In the config this would be:
<group name="group1" label="First group of parameters" collapsable="true" collapsed="true"> <param>...</param> ... </group>
(collapsed/collapsable would configure whether the group can be hidden and is hidden by default, this would be a more natural way to define commonly used vs all parameters for example).
-- jt
On Mon, Oct 15, 2012 at 10:11 AM, Joachim Jacob <joachim.jacob@vib.be> wrote:
You might have a look to the GMAP aligner wrapper in the toolshed http://toolshed.g2.bx.psu.edu/. Apparently you have to use the html codes for the symbols, instead of the symbols themselves GMAP example:
label="<H2>Input Sequences</H2>Select an mRNA or EST dataset to map" />
participants (3)
-
Alfredo Guilherme Silva Souza -
James Taylor -
Joachim Jacob