CDR Tickets

BZDATETIME::2011-05-11 15:11:23
BZCOMMENTOR::Volker Englisch
BZCOMMENT::1

(In reply to comment #0)
> Search string/section metadata blurbs do not show up in publish previews for
> CAM summaries. It may not have been implemented for CAM originally.

That is correct. The search strings have only been implemented for treatment and HP Supportive Care summaries.

Are we going to follow the same rules as for those summaries (i.e. create a search string SummarySection if the TopLevel search string attribute exists)?

BZDATETIME::2011-05-16 17:43:30
BZCOMMENTOR::Volker Englisch
BZCOMMENT::2

The following filter has been updated in order to display the trial search strings for CAM summaries:
CDR000157.xml - Vendor Filter: Summary

This is ready for review on MAHLER.

(I've used document CDR539333 for testing.)

BZDATETIME::2011-05-17 12:29:52
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::3

(In reply to comment #2)
> The following filter has been updated in order to display the trial search
> strings for CAM summaries:
> CDR000157.xml - Vendor Filter: Summary
>
> This is ready for review on MAHLER.
>
> (I've used document CDR539333 for testing.)

Verified on Mahler. Please promote to Bach.

BZDATETIME::2011-05-20 12:41:14
BZCOMMENTOR::Volker Englisch
BZCOMMENT::4

I ran a diff report for Summaries on FRANCK and the two output data sets are identical. This shows - at a minimum - that I didn't break anything.
Since there is currently no data available for the CAM summaries on FRANCK (at least not as part of a publishable version) that's all the information that we can deduct from the diff report.

I've copied the filter to FRANCK and BACH:
CDR000157.xml - Vendor Filter: Summary

Please verify on BACH and close this bug.

BZDATETIME::2011-05-23 12:47:35
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::5

(In reply to comment #4)
> I've copied the filter to FRANCK and BACH:
> CDR000157.xml - Vendor Filter: Summary
>
> Please verify on BACH and close this bug.

The blurb displays accurately but the search results appear not to match the linked metadata terms. Please let me know if you need some examples.

BZDATETIME::2011-05-23 12:58:20
BZCOMMENTOR::Volker Englisch
BZCOMMENT::6

(In reply to comment #5)
> Please let me know if you need some examples.

Yes, please.

BZDATETIME::2011-05-23 14:26:48
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::7

(In reply to comment #6)
> (In reply to comment #5)
> > Please let me know if you need some examples.
>
> Yes, please.

Take a look at pub preview of Antineoplastons 539333 (on Bach) and click the link for antineoplaston A10. The trials that are retrieved are not relevant to the drug. However, diagnosis terms retrieve relevant results. Also, when you take a look at the search criteria, the Cancer “Type/Condition:” and “Stage/Subtype:” criteria are missing for drug terms. So this appears to an issue with the implementation for non diagnosis terms.

BZDATETIME::2011-05-23 15:50:22
BZCOMMENTOR::Volker Englisch
BZCOMMENT::8

I thought all I had to do was to allow the CAM summaries to be creating the Trial Search section, too. Now I see - and vaguely remember - that there are additional parameters that need to be set.
There are two parameters to be set:
format: 1 - Patients, 2 - HP
tt: 1 - Treatment, 2 - Supportive Care (tt=TrialType)

I'm guessing that the format needs to be set to HP (2) and the type to be set to non-treatment (2).

Could you please check if this link displays the correct search result?
http://www.cancer.gov/Search/ClinicalTrialsLink.aspx?Drug=41984&tt=2&format=2&cn=1

BZDATETIME::2011-05-24 12:55:21
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::9

(In reply to comment #8)
>
> Could you please check if this link displays the correct search result?
> http://www.cancer.gov/Search/ClinicalTrialsLink.aspx?Drug=41984&tt=2&format=2&cn=1

Do you mean results for Antineoplastons? If yes, then they are not the right results.

BZDATETIME::2011-05-25 16:15:25
BZCOMMENTOR::Volker Englisch
BZCOMMENT::10

I remember that I've seen a document about the values of the parameters when we originally added the search strings to the summaries. I am trying to find this document (unsuccessfully so far) but without it all I can do is to try out different values.

When inspecting the source of the trials search page there are several values for the trial type available but none of them is for CAM:
tt=0 - All
tt=1 - Treatment
tt=2 - Supportive care
tt=3 - Screening
tt=4 - Prevention
tt=5 - Genetics_
tt=6 - Diagnostic
tt=7 - Biomarker/Laboratory analysis
tt=8 - Tissue collection/Repository
tt=9 - Educational/Counseling/Training
tt=10 - Behavioral study
tt=11 - Natural history/Epidemiology
tt=12 - Health services research

Is this something that needs to be addressed by Cancer.gov to allow a search for CAM?

For my information:
cn --> Country (1 = U.S.A.)
tt --> Trial Type (1 = Treatment, 2 = Supportive Care, ...)
format --> audience (1 =

BZDATETIME::2011-05-25 16:16:41
BZCOMMENTOR::Volker Englisch
BZCOMMENT::11

(In reply to comment #10)
> format --> audience (1 =

I wasn't done typing:
format --> audience (1 = Patients, 2 = HP)

BZDATETIME::2011-05-26 10:35:46
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::12

(In reply to comment #10)
> I remember that I've seen a document about the values of the parameters when we
> originally added the search strings to the summaries. I am trying to find this
> document (unsuccessfully so far) but without it all I can do is to try out
> different values.

It looks like the document you're looking for is found in OCECDR-1806.

BZDATETIME::2011-06-06 12:46:17
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::13

Also, I am thinking that we would want to narrow these by Treatment as the trial type, or possibly not narrow by trial type at all. There is no "CAM" trial type. It is an Intervention Type that the trials are coded with.

BZDATETIME::2011-06-08 18:22:12
BZCOMMENTOR::Volker Englisch
BZCOMMENT::14

I finally figured out how to create the URL for the searches to come up correctly for these CAM summaries.
I've setup the search for treatment trials right now (tt=1).

The parameters for Drugs and Intervention are set to:
a) for Drug: ...?id=99999&idtype=1
b) for Intervention ...?id=99999&idtype=5

This is the complete link:
http://www.cancer.gov/Search/ClinicalTrialsLink.aspx?id=574092&idtype=5&tt=1&format=1&cn=1

This is ready for review on FRANCK.

Please make sure to also test the other search strings for treatment and supportive care summaries in case I broke anything.

BZDATETIME::2011-06-16 11:24:41
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::15

Let me know when these changes are re-installed on Franck so that we can complete testing.

BZDATETIME::2011-06-16 11:29:08
BZCOMMENTOR::Volker Englisch
BZCOMMENT::16

The filter has been updated on FRANCK now but it could have been tested on MAHLER as well.

BZDATETIME::2011-06-27 10:19:33
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::17

(In reply to comment #16)
> The filter has been updated on FRANCK now but it could have been tested on
> MAHLER as well.

Verified on Mahler. Please promote to Bach.

BZDATETIME::2011-07-01 18:43:25
BZCOMMENTOR::Volker Englisch
BZCOMMENT::18

I wanted to move this to BACH but then decided to wait until I'm back from vacation and I was able to run a diff report on FRANCK first.

BZDATETIME::2011-07-11 09:55:52
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::19

After talking to Robin about the results of these searches, she would like to have the search string cover ALL types of trials instead of just Treatment. She said we are missing a lot of supportive care trials by just using the Treatment selection.

BZDATETIME::2011-07-11 14:34:31
BZCOMMENTOR::Volker Englisch
BZCOMMENT::20

I've updated the search string to include all trials.

This is ready for review on FRANCK.

BZDATETIME::2011-07-13 08:25:14
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::21

(In reply to comment #20)
> I've updated the search string to include all trials.
>
> This is ready for review on FRANCK.

Verified on Franck. Please promote to Bach.

BZDATETIME::2011-07-14 11:26:32
BZCOMMENTOR::Volker Englisch
BZCOMMENT::22

I'm in the process of running diff reports on FRANCK.

BZDATETIME::2011-07-15 13:06:06
BZCOMMENTOR::Volker Englisch
BZCOMMENT::23

The following filter has been copied to FRANCK and BACH:
CDR000157.xml - Vendor Filter: Summary - R10113

The diff report on FRANCK did not show any differences but there hasn't been a document for which the filter would have created the new Clin. Trials section either. As soon as the summaries including the section meta data are made publishable the new sections will show up on Cancer.gov.

Please verify on BACH and close this bug.

BZDATETIME::2011-08-01 10:59:50
BZCOMMENTOR::Volker Englisch
BZCOMMENT::24

The CAM summaries with the new Current Clinical Trials section have been published over the weekend.

BZDATETIME::2011-08-03 13:47:27
BZCOMMENTOR::Volker Englisch
BZCOMMENT::25

From an email from Margaret:
I think there may be some discrepancies in which types of trials are being retrieved through the clinical trials search strings in the CAM and Supportive Care summaries.

Here is what is desired:

Desired Currently
------------------— -----------------— -------------------
CAM Patient summaries All trial types All trial types
CAM HP summaries All trial types Treatment only
SC Patient summaries Supportive Care only Not implemented
SC HP summaries Supportive Care only Supportive Care only

I'm reopening this issue to address the two types that need to be implemented.

BZDATETIME::2011-08-03 16:34:44
BZCOMMENTOR::Volker Englisch
BZCOMMENT::26

I have rewritten the section in the filter that is creating the link for the clinical trials searches but I need help testing because I would not know if the link created actually does retrieve the correct protocols.
Also, I don't know which of the non-treatment summaries contain the trial search string.

To make things a little easier for now I'm duplicating each trial search link. The first link (enclosed in brackets) is the new link, the second one is the original link. I'm hoping that this will help to compare the results of the old with the new string. Once everything looks good I will remove the old link before we'll copy this to production.

This is ready to be tested on MAHLER.

BZDATETIME::2011-08-05 10:13:05
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::27

(In reply to comment #26)

> This is ready to be tested on MAHLER.
Should we focus testing on only CAM and SC summaries?

BZDATETIME::2011-08-05 10:36:52
BZCOMMENTOR::Volker Englisch
BZCOMMENT::28

I have rewritten the part that creates the search string URL which affects all of the summaries. Please make sure that the results for treatment, HP/Patient, Diagnosis/Intervention/Drug still work properly.

BZDATETIME::2011-08-10 16:59:29
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::29

(In reply to comment #26)
>
> This is ready to be tested on MAHLER.

They have been reviewed in Mahler and they all looked good. We did not find any problems.

BZDATETIME::2011-08-12 11:56:06
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::30

(In reply to comment #29)
> (In reply to comment #26)
> >
> > This is ready to be tested on MAHLER.
>
> They have been reviewed in Mahler and they all looked good. We did not find any
> problems.

All, including supportive care summaries have now been checked and they all looked good.

BZDATETIME::2011-08-12 12:07:45
BZCOMMENTOR::Volker Englisch
BZCOMMENT::31

That's good. I ran a diff report on FRANCK and there were no changes, which means that I didn't brake anything.

Let me know if you'd like me to move this to production.

BZDATETIME::2011-08-17 09:44:11
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::32

(In reply to comment #31)
> That's good. I ran a diff report on FRANCK and there were no changes, which
> means that I didn't brake anything.
>
> Let me know if you'd like me to move this to production.

Please promote to Bach.

BZDATETIME::2011-08-18 11:28:15
BZCOMMENTOR::Volker Englisch
BZCOMMENT::33

The following filter has been copied to FRANCK and BACH:
CDR000157.xml - Vendor Filter: Summary - R10179

Please verify on BACH and close this bug.

BZDATETIME::2011-08-23 14:53:48
BZCOMMENTOR::William Osei-Poku
BZCOMMENT::34

(In reply to comment #33)
> The following filter has been copied to FRANCK and BACH:
> CDR000157.xml - Vendor Filter: Summary - R10179
>
> Please verify on BACH and close this bug.

Verified on Bach. Closing issue. Thank you!

BZDATETIME::2011-10-20 13:47:41
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::35

CAM HP summaries are only picking up Treatment trials in the clinical trial search strings and they should be picking up all trial types.

(In reply to comment #25)
> From an email from Margaret:
> I think there may be some discrepancies in which types of trials are being
> retrieved through the clinical trials search strings in the CAM and Supportive
> Care summaries.
> Here is what is desired:
> Desired Currently
> ------------------— -----------------— -------------------
> CAM Patient summaries All trial types All trial types
> CAM HP summaries All trial types Treatment only
> SC Patient summaries Supportive Care only Not implemented
> SC HP summaries Supportive Care only Supportive Care only
> I'm reopening this issue to address the two types that need to be implemented.

BZDATETIME::2011-10-20 13:56:35
BZCOMMENTOR::Volker Englisch
BZCOMMENT::36

(In reply to comment #35)
> CAM HP summaries are only picking up Treatment trials in the clinical trial
> search strings and they should be picking up all trial types.

Would someone be able to give me a protocol number that's missing on the search?
It would make testing a little easier for me.

BZDATETIME::2011-10-20 14:29:16
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::37

Robin said to tell you that she has been diving too deeply into cannabis, and is feeling a little light-headed! It turns out that the supportive care trials that are missing are missing because they are non-US. This brings up the next question, which is, is there anyway for the CAM summaries only, to have the searches not restricted to US trials?

BZDATETIME::2011-10-20 14:34:47
BZCOMMENTOR::Volker Englisch
BZCOMMENT::38

I know that there is a provision for limiting trials to US-only trials but I am not certain that this parameter has yet been implemented.
If you give me the summary where Margaret was thinking the trial was missing I could use the URL and quickly test if this parameter has been implemented. I sort of remember that is has.

BZDATETIME::2011-10-20 14:38:14
BZCOMMENTOR::Volker Englisch
BZCOMMENT::39

Duh! Let me guess: It's the Cannabis summary?

BZDATETIME::2011-10-20 14:46:30
BZCOMMENTOR::Volker Englisch
BZCOMMENT::40

(In reply to comment #37)
> This brings up the next question, which is, is there anyway for the CAM
> summaries only, to have the searches not restricted to US trials?

Yes, we can! I found additional trials for nabiximols when removing the country parameter.

BZDATETIME::2011-10-20 15:02:17
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::41

We narrow all clinical trial search strings in all of the summaries to US only. What we want to do is expand the search to all trials for the CAM summaries.

BZDATETIME::2011-10-20 15:03:11
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::42

Right, those were the ones that Robin identified as missing.

BZDATETIME::2011-10-20 16:39:01
BZCOMMENTOR::Volker Englisch
BZCOMMENT::43

The following filter has been updated to update the search string for CAM summaries:
CDR000157.xml - Vendor Filter: Summary - R10234

This is ready for review on MAHLER.
I also copied the updates to FRANCK.

BZDATETIME::2011-10-21 09:53:13
BZCOMMENTOR::Margaret Beckwith
BZCOMMENT::44

This looks good. Please promote.

BZDATETIME::2011-10-21 12:31:22
BZCOMMENTOR::Volker Englisch
BZCOMMENT::45

I ran a test publishing job for Summaries on FRANCK to ensure I didn't break anything. The filter has been updated on BACH:
CDR000157.xml - Vendor Filter: Summary - R10234

You may want to double-check the publish preview report on BACH or wait until next weeks publishing job finished before closing this issue.

BZDATETIME::2011-10-27 18:26:23
BZCOMMENTOR::Volker Englisch
BZCOMMENT::46

This was published last weekend and can be closed as discussed at our status meeting.