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Posted to dev@ctakes.apache.org by "maashu@gmail.com" <ma...@gmail.com> on 2015/06/12 19:17:37 UTC
TimeLanes
Hi All,
I've just started working with cTAKES and was curious about TimeLanes. I
found it in the sandbox here:
https://svn.apache.org/repos/asf/ctakes/sandbox/timelanes/
But I'm lost on how to actually use it. I've googled around but there
seems to be very little information on it.
Can anyone point me in the right direction?
Thanks in advance!
Cheers,
-Maashu
--
"If you are immune to boredom, there is literally nothing you cannot
accomplish."
-David Foster Wallace
Re: TimeLanes
Posted by "maashu@gmail.com" <ma...@gmail.com>.
Thanks so much for your replies, Sean and Guergana! I'm very excited for
the possibilities of this project, and hope to contribute in some small way
:)
Cheers,
-Maashu
On Mon, Jun 22, 2015 at 12:09 PM, Finan, Sean <
Sean.Finan@childrens.harvard.edu> wrote:
> Just for clarification, TimeLanes does consume ctakes output (.xmi), but
> it does not produce it. In other words, you cannot hand it a plain text
> file and expect automatic processing. Yet.
>
> -----Original Message-----
> From: Savova, Guergana [mailto:Guergana.Savova@childrens.harvard.edu]
> Sent: Monday, June 22, 2015 3:02 PM
> To: dev@ctakes.apache.org
> Subject: RE: TimeLanes
>
> The cTAKES temporal component is in the main release. You can get the
> system output, but as Sean said TimeLanes does not consume it yet.
>
> A demo of the cTAKES temporal component can be found in Getting Started ->
> Demos. Pei just put it up there, thank you very much, Pei!
> --Guergana
>
>
> -----Original Message-----
> From: Finan, Sean [mailto:Sean.Finan@childrens.harvard.edu]
> Sent: Monday, June 22, 2015 11:36 AM
> To: dev@ctakes.apache.org
> Subject: RE: TimeLanes
>
> Hi Maashu,
>
>
>
> TimeLanes is currently a prototype gui under development and there is
> probably no information about it on the web. It is in sandbox because it
> isn't part of the ctakes release and is missing much needed functionality.
> For instance, It should display basic information about the patient and
> note (name, birth date, note date), but such things are often in structured
> data or some custom header of the note. Right now TimeLanes does not fetch
> them at all (it will require custom readers) and just displays "Dan
> Testing".
>
>
>
> If you want to run it, the main class is
> org.chboston.cnlp.timeline.gui.main.TimelineMain . Upon startup it will
> display "open a note". You can use the "Open" button or drag a file into
> the box. Unfortunately, it does not yet run ctakes (coming soon), so you
> need to give it an annotated (protégé or Anafora) note or .xmi . Using an
> .xmi would probably be easiest as you can create it with ctakes. You can
> watch an outdated video here:
>
>
> https://urldefense.proofpoint.com/v2/url?u=https-3A__www.youtube.com_watch-3Fv-3DKp9YE0o3urU-26feature-3Dyoutu.be&d=BQIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=SeLHlpmrGNnJ9mI2WCgf_wwQk9zL4aIrVmfBoSi-j0kfEcrO4yRGmRCJNAr-rCmP&m=P2Q3bVKBdvXziFnahfApZEyBbj-eR-wV-TfEZfTtl0Q&s=1HETvigL__bzBXBpv2jLdRJMvJ3CI77UQZORumsBJIM&e=
>
>
>
> Sean
>
>
>
> -----Original Message-----
>
> From: maashu@gmail.com [mailto:maashu@gmail.com]
>
> Sent: Friday, June 12, 2015 1:18 PM
>
> To: dev@ctakes.apache.org
>
> Subject: TimeLanes
>
>
>
> Hi All,
>
>
>
> I've just started working with cTAKES and was curious about TimeLanes. I
> found it in the sandbox here:
>
>
>
>
> https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_sandbox_timelanes_&d=BQIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=qneEArWy0QvCgMGCuF8-DwG3kslsrGAKWFtmP174uO4&s=iZj-v0HJjZccezixIOmlTFwyIGFf9OqImfSv-aMKdgI&e=
>
>
>
> But I'm lost on how to actually use it. I've googled around but there
> seems to be very little information on it.
>
>
>
> Can anyone point me in the right direction?
>
>
>
> Thanks in advance!
>
>
>
> Cheers,
>
>
>
> -Maashu
>
>
>
> --
>
> "If you are immune to boredom, there is literally nothing you cannot
> accomplish."
>
>
>
> -David Foster Wallace
>
>
--
"If you are immune to boredom, there is literally nothing you cannot
accomplish."
-David Foster Wallace
RE: TimeLanes
Posted by "Finan, Sean" <Se...@childrens.harvard.edu>.
Just for clarification, TimeLanes does consume ctakes output (.xmi), but it does not produce it. In other words, you cannot hand it a plain text file and expect automatic processing. Yet.
-----Original Message-----
From: Savova, Guergana [mailto:Guergana.Savova@childrens.harvard.edu]
Sent: Monday, June 22, 2015 3:02 PM
To: dev@ctakes.apache.org
Subject: RE: TimeLanes
The cTAKES temporal component is in the main release. You can get the system output, but as Sean said TimeLanes does not consume it yet.
A demo of the cTAKES temporal component can be found in Getting Started -> Demos. Pei just put it up there, thank you very much, Pei!
--Guergana
-----Original Message-----
From: Finan, Sean [mailto:Sean.Finan@childrens.harvard.edu]
Sent: Monday, June 22, 2015 11:36 AM
To: dev@ctakes.apache.org
Subject: RE: TimeLanes
Hi Maashu,
TimeLanes is currently a prototype gui under development and there is probably no information about it on the web. It is in sandbox because it isn't part of the ctakes release and is missing much needed functionality. For instance, It should display basic information about the patient and note (name, birth date, note date), but such things are often in structured data or some custom header of the note. Right now TimeLanes does not fetch them at all (it will require custom readers) and just displays "Dan Testing".
If you want to run it, the main class is org.chboston.cnlp.timeline.gui.main.TimelineMain . Upon startup it will display "open a note". You can use the "Open" button or drag a file into the box. Unfortunately, it does not yet run ctakes (coming soon), so you need to give it an annotated (protégé or Anafora) note or .xmi . Using an .xmi would probably be easiest as you can create it with ctakes. You can watch an outdated video here:
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.youtube.com_watch-3Fv-3DKp9YE0o3urU-26feature-3Dyoutu.be&d=BQIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=SeLHlpmrGNnJ9mI2WCgf_wwQk9zL4aIrVmfBoSi-j0kfEcrO4yRGmRCJNAr-rCmP&m=P2Q3bVKBdvXziFnahfApZEyBbj-eR-wV-TfEZfTtl0Q&s=1HETvigL__bzBXBpv2jLdRJMvJ3CI77UQZORumsBJIM&e=
Sean
-----Original Message-----
From: maashu@gmail.com [mailto:maashu@gmail.com]
Sent: Friday, June 12, 2015 1:18 PM
To: dev@ctakes.apache.org
Subject: TimeLanes
Hi All,
I've just started working with cTAKES and was curious about TimeLanes. I found it in the sandbox here:
https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_sandbox_timelanes_&d=BQIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=qneEArWy0QvCgMGCuF8-DwG3kslsrGAKWFtmP174uO4&s=iZj-v0HJjZccezixIOmlTFwyIGFf9OqImfSv-aMKdgI&e=
But I'm lost on how to actually use it. I've googled around but there seems to be very little information on it.
Can anyone point me in the right direction?
Thanks in advance!
Cheers,
-Maashu
--
"If you are immune to boredom, there is literally nothing you cannot accomplish."
-David Foster Wallace
RE: TimeLanes
Posted by "Savova, Guergana" <Gu...@childrens.harvard.edu>.
The cTAKES temporal component is in the main release. You can get the system output, but as Sean said TimeLanes does not consume it yet.
A demo of the cTAKES temporal component can be found in Getting Started -> Demos. Pei just put it up there, thank you very much, Pei!
--Guergana
-----Original Message-----
From: Finan, Sean [mailto:Sean.Finan@childrens.harvard.edu]
Sent: Monday, June 22, 2015 11:36 AM
To: dev@ctakes.apache.org
Subject: RE: TimeLanes
Hi Maashu,
TimeLanes is currently a prototype gui under development and there is probably no information about it on the web. It is in sandbox because it isn't part of the ctakes release and is missing much needed functionality. For instance, It should display basic information about the patient and note (name, birth date, note date), but such things are often in structured data or some custom header of the note. Right now TimeLanes does not fetch them at all (it will require custom readers) and just displays "Dan Testing".
If you want to run it, the main class is org.chboston.cnlp.timeline.gui.main.TimelineMain . Upon startup it will display "open a note". You can use the "Open" button or drag a file into the box. Unfortunately, it does not yet run ctakes (coming soon), so you need to give it an annotated (protégé or Anafora) note or .xmi . Using an .xmi would probably be easiest as you can create it with ctakes. You can watch an outdated video here:
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.youtube.com_watch-3Fv-3DKp9YE0o3urU-26feature-3Dyoutu.be&d=BQIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=SeLHlpmrGNnJ9mI2WCgf_wwQk9zL4aIrVmfBoSi-j0kfEcrO4yRGmRCJNAr-rCmP&m=P2Q3bVKBdvXziFnahfApZEyBbj-eR-wV-TfEZfTtl0Q&s=1HETvigL__bzBXBpv2jLdRJMvJ3CI77UQZORumsBJIM&e=
Sean
-----Original Message-----
From: maashu@gmail.com [mailto:maashu@gmail.com]
Sent: Friday, June 12, 2015 1:18 PM
To: dev@ctakes.apache.org
Subject: TimeLanes
Hi All,
I've just started working with cTAKES and was curious about TimeLanes. I found it in the sandbox here:
https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_sandbox_timelanes_&d=BQIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=qneEArWy0QvCgMGCuF8-DwG3kslsrGAKWFtmP174uO4&s=iZj-v0HJjZccezixIOmlTFwyIGFf9OqImfSv-aMKdgI&e=
But I'm lost on how to actually use it. I've googled around but there seems to be very little information on it.
Can anyone point me in the right direction?
Thanks in advance!
Cheers,
-Maashu
--
"If you are immune to boredom, there is literally nothing you cannot accomplish."
-David Foster Wallace
RE: TimeLanes
Posted by "Finan, Sean" <Se...@childrens.harvard.edu>.
Hi Maashu,
TimeLanes is currently a prototype gui under development and there is probably no information about it on the web. It is in sandbox because it isn't part of the ctakes release and is missing much needed functionality. For instance, It should display basic information about the patient and note (name, birth date, note date), but such things are often in structured data or some custom header of the note. Right now TimeLanes does not fetch them at all (it will require custom readers) and just displays "Dan Testing".
If you want to run it, the main class is org.chboston.cnlp.timeline.gui.main.TimelineMain . Upon startup it will display "open a note". You can use the "Open" button or drag a file into the box. Unfortunately, it does not yet run ctakes (coming soon), so you need to give it an annotated (protégé or Anafora) note or .xmi . Using an .xmi would probably be easiest as you can create it with ctakes. You can watch an outdated video here:
https://www.youtube.com/watch?v=Kp9YE0o3urU&feature=youtu.be
Sean
-----Original Message-----
From: maashu@gmail.com [mailto:maashu@gmail.com]
Sent: Friday, June 12, 2015 1:18 PM
To: dev@ctakes.apache.org
Subject: TimeLanes
Hi All,
I've just started working with cTAKES and was curious about TimeLanes. I found it in the sandbox here:
https://urldefense.proofpoint.com/v2/url?u=https-3A__svn.apache.org_repos_asf_ctakes_sandbox_timelanes_&d=BQIBaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=qneEArWy0QvCgMGCuF8-DwG3kslsrGAKWFtmP174uO4&s=iZj-v0HJjZccezixIOmlTFwyIGFf9OqImfSv-aMKdgI&e=
But I'm lost on how to actually use it. I've googled around but there seems to be very little information on it.
Can anyone point me in the right direction?
Thanks in advance!
Cheers,
-Maashu
--
"If you are immune to boredom, there is literally nothing you cannot accomplish."
-David Foster Wallace