* BUG variable expansion with table
@ 2014-06-25 19:55 Rainer M Krug
2014-06-26 23:25 ` Andreas Leha
2014-07-28 15:46 ` Bastien
0 siblings, 2 replies; 4+ messages in thread
From: Rainer M Krug @ 2014-06-25 19:55 UTC (permalink / raw)
To: emacs-orgmode; +Cc: schulte.eric
[-- Attachment #1: Type: text/plain, Size: 3347 bytes --]
Hi
there seems to be a bug in the table transfer. The org file below
evaluates as shown, i.e. the TABLE_BLOCK contains one column less then
it should as the first column is discarded and the second one used as
the row names. This only occurs when there is a second variable
defined. When the second variable is not passed, the code works (see
second example below).
I did not get far when debugging, only that in the function
org-babel-R-assign-elisp when assigning TABLE_FILE the rownames are
missing in the =value=.
Rainer
First example:
--8<---------------cut here---------------start------------->8---
#+PROPERTY: rownames yes
#+PROPERTY: colnames yes
#+NAME: TABLE
| | name | description |
|----------+--------------+--------------------|
| annee | year | Year of simulation |
| id | ipoints_Qdiv | Point Number |
| iespece | species | species number |
| scenario | scenario | Type of forest |
#+PROPERTY: var TABLE_FILE=TABLE
#+PROPERTY: var+ float=123.45
* Data Assessment Results
#+HEADERS: :var TABLE_BLOCK=TABLE
#+HEADERS: :rownames yes
#+HEADERS: :colnames yes
#+begin_src R :results output wrap
TABLE_FILE
TABLE_BLOCK
#+end_src
#+RESULTS:
:RESULTS:
name description
annee year Year of simulation
id ipoints_Qdiv Point Number
iespece species species number
scenario scenario Type of forest
Year.of.simulation
ipoints_Qdiv Point Number
species species number
scenario Type of forest
:END:
--8<---------------cut here---------------end--------------->8---
Second example:
--8<---------------cut here---------------start------------->8---
#+PROPERTY: rownames yes
#+PROPERTY: colnames yes
#+NAME: TABLE
| | name | description |
|----------+--------------+--------------------|
| annee | year | Year of simulation |
| id | ipoints_Qdiv | Point Number |
| iespece | species | species number |
| scenario | scenario | Type of forest |
#+PROPERTY: var TABLE_FILE=TABLE
#+ PROPERTY: var+ float=123.45
* Data Assessment Results
#+HEADERS: :var TABLE_BLOCK=TABLE
#+HEADERS: :rownames yes
#+HEADERS: :colnames yes
#+begin_src R :results output wrap
TABLE_FILE
TABLE_BLOCK
#+end_src
#+RESULTS:
:RESULTS:
name description
annee year Year of simulation
id ipoints_Qdiv Point Number
iespece species species number
scenario scenario Type of forest
name description
annee year Year of simulation
id ipoints_Qdiv Point Number
iespece species species number
scenario scenario Type of forest
:END:
--8<---------------cut here---------------end--------------->8---
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa
Tel : +33 - (0)9 53 10 27 44
Cell: +33 - (0)6 85 62 59 98
Fax : +33 - (0)9 58 10 27 44
Fax (D): +49 - (0)3 21 21 25 22 44
email: Rainer@krugs.de
Skype: RMkrug
PGP: 0x0F52F982
[-- Attachment #2: Type: application/pgp-signature, Size: 494 bytes --]
^ permalink raw reply [flat|nested] 4+ messages in thread
* Re: BUG variable expansion with table
2014-06-25 19:55 BUG variable expansion with table Rainer M Krug
@ 2014-06-26 23:25 ` Andreas Leha
2014-06-27 9:48 ` Rainer M Krug
2014-07-28 15:46 ` Bastien
1 sibling, 1 reply; 4+ messages in thread
From: Andreas Leha @ 2014-06-26 23:25 UTC (permalink / raw)
To: emacs-orgmode
Hi Rainer,
Rainer M Krug <Rainer@krugs.de> writes:
> Hi
>
> there seems to be a bug in the table transfer. The org file below
> evaluates as shown, i.e. the TABLE_BLOCK contains one column less then
> it should as the first column is discarded and the second one used as
> the row names. This only occurs when there is a second variable
> defined. When the second variable is not passed, the code works (see
> second example below).
>
> I did not get far when debugging, only that in the function
> org-babel-R-assign-elisp when assigning TABLE_FILE the rownames are
> missing in the =value=.
>
> Rainer
>
> First example:
>
> #+PROPERTY: rownames yes
> #+PROPERTY: colnames yes
>
> #+NAME: TABLE
> | | name | description |
> |----------+--------------+--------------------|
> | annee | year | Year of simulation |
> | id | ipoints_Qdiv | Point Number |
> | iespece | species | species number |
> | scenario | scenario | Type of forest |
> #+PROPERTY: var TABLE_FILE=TABLE
> #+PROPERTY: var+ float=123.45
>
> * Data Assessment Results
> #+HEADERS: :var TABLE_BLOCK=TABLE
> #+HEADERS: :rownames yes
> #+HEADERS: :colnames yes
> #+begin_src R :results output wrap
> TABLE_FILE
> TABLE_BLOCK
> #+end_src
>
> #+RESULTS:
> :RESULTS:
> name description
> annee year Year of simulation
> id ipoints_Qdiv Point Number
> iespece species species number
> scenario scenario Type of forest
> Year.of.simulation
> ipoints_Qdiv Point Number
> species species number
> scenario Type of forest
> :END:
>
>
> Second example:
>
> #+PROPERTY: rownames yes
> #+PROPERTY: colnames yes
>
> #+NAME: TABLE
> | | name | description |
> |----------+--------------+--------------------|
> | annee | year | Year of simulation |
> | id | ipoints_Qdiv | Point Number |
> | iespece | species | species number |
> | scenario | scenario | Type of forest |
> #+PROPERTY: var TABLE_FILE=TABLE
> #+ PROPERTY: var+ float=123.45
>
> * Data Assessment Results
> #+HEADERS: :var TABLE_BLOCK=TABLE
> #+HEADERS: :rownames yes
> #+HEADERS: :colnames yes
> #+begin_src R :results output wrap
> TABLE_FILE
> TABLE_BLOCK
> #+end_src
>
> #+RESULTS:
> :RESULTS:
> name description
> annee year Year of simulation
> id ipoints_Qdiv Point Number
> iespece species species number
> scenario scenario Type of forest
> name description
> annee year Year of simulation
> id ipoints_Qdiv Point Number
> iespece species species number
> scenario scenario Type of forest
> :END:
FWIW, I think that bug was reported some while back [fn:1] --
unfortunately without a fix .... ;-)
- Andreas
Footnotes:
[fn:1] http://article.gmane.org/gmane.emacs.orgmode/82295/match=
^ permalink raw reply [flat|nested] 4+ messages in thread
* Re: BUG variable expansion with table
2014-06-26 23:25 ` Andreas Leha
@ 2014-06-27 9:48 ` Rainer M Krug
0 siblings, 0 replies; 4+ messages in thread
From: Rainer M Krug @ 2014-06-27 9:48 UTC (permalink / raw)
To: Andreas Leha; +Cc: emacs-orgmode
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Andreas Leha <andreas.leha@med.uni-goettingen.de> writes:
> Hi Rainer,
>
> Rainer M Krug <Rainer@krugs.de> writes:
>
>> Hi
>>
>> there seems to be a bug in the table transfer. The org file below
>> evaluates as shown, i.e. the TABLE_BLOCK contains one column less then
>> it should as the first column is discarded and the second one used as
>> the row names. This only occurs when there is a second variable
>> defined. When the second variable is not passed, the code works (see
>> second example below).
>>
>> I did not get far when debugging, only that in the function
>> org-babel-R-assign-elisp when assigning TABLE_FILE the rownames are
>> missing in the =value=.
>>
>> Rainer
>>
>> First example:
>>
>> #+PROPERTY: rownames yes
>> #+PROPERTY: colnames yes
>>
>> #+NAME: TABLE
>> | | name | description |
>> |----------+--------------+--------------------|
>> | annee | year | Year of simulation |
>> | id | ipoints_Qdiv | Point Number |
>> | iespece | species | species number |
>> | scenario | scenario | Type of forest |
>> #+PROPERTY: var TABLE_FILE=TABLE
>> #+PROPERTY: var+ float=123.45
>>
>> * Data Assessment Results
>> #+HEADERS: :var TABLE_BLOCK=TABLE
>> #+HEADERS: :rownames yes
>> #+HEADERS: :colnames yes
>> #+begin_src R :results output wrap
>> TABLE_FILE
>> TABLE_BLOCK
>> #+end_src
>>
>> #+RESULTS:
>> :RESULTS:
>> name description
>> annee year Year of simulation
>> id ipoints_Qdiv Point Number
>> iespece species species number
>> scenario scenario Type of forest
>> Year.of.simulation
>> ipoints_Qdiv Point Number
>> species species number
>> scenario Type of forest
>> :END:
>>
>>
>> Second example:
>>
>> #+PROPERTY: rownames yes
>> #+PROPERTY: colnames yes
>>
>> #+NAME: TABLE
>> | | name | description |
>> |----------+--------------+--------------------|
>> | annee | year | Year of simulation |
>> | id | ipoints_Qdiv | Point Number |
>> | iespece | species | species number |
>> | scenario | scenario | Type of forest |
>> #+PROPERTY: var TABLE_FILE=TABLE
>> #+ PROPERTY: var+ float=123.45
>>
>> * Data Assessment Results
>> #+HEADERS: :var TABLE_BLOCK=TABLE
>> #+HEADERS: :rownames yes
>> #+HEADERS: :colnames yes
>> #+begin_src R :results output wrap
>> TABLE_FILE
>> TABLE_BLOCK
>> #+end_src
>>
>> #+RESULTS:
>> :RESULTS:
>> name description
>> annee year Year of simulation
>> id ipoints_Qdiv Point Number
>> iespece species species number
>> scenario scenario Type of forest
>> name description
>> annee year Year of simulation
>> id ipoints_Qdiv Point Number
>> iespece species species number
>> scenario scenario Type of forest
>> :END:
>
>
> FWIW, I think that bug was reported some while back [fn:1] --
> unfortunately without a fix .... ;-)
Pity - I will work around it then.
Thanks,
Rainer
>
> - Andreas
>
>
>
> Footnotes:
>
> [fn:1] http://article.gmane.org/gmane.emacs.orgmode/82295/match=
>
>
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology, UCT), Dipl. Phys. (Germany)
Centre of Excellence for Invasion Biology
Stellenbosch University
South Africa
Tel : +33 - (0)9 53 10 27 44
Cell: +33 - (0)6 85 62 59 98
Fax : +33 - (0)9 58 10 27 44
Fax (D): +49 - (0)3 21 21 25 22 44
email: Rainer@krugs.de
Skype: RMkrug
PGP: 0x0F52F982
[-- Attachment #2: Type: application/pgp-signature, Size: 494 bytes --]
^ permalink raw reply [flat|nested] 4+ messages in thread
* Re: BUG variable expansion with table
2014-06-25 19:55 BUG variable expansion with table Rainer M Krug
2014-06-26 23:25 ` Andreas Leha
@ 2014-07-28 15:46 ` Bastien
1 sibling, 0 replies; 4+ messages in thread
From: Bastien @ 2014-07-28 15:46 UTC (permalink / raw)
To: Rainer M Krug; +Cc: emacs-orgmode, schulte.eric
Hi Rainer,
Rainer M Krug <Rainer@krugs.de> writes:
> I did not get far when debugging, only that in the function
> org-babel-R-assign-elisp when assigning TABLE_FILE the rownames are
> missing in the =value=.
Did you have a chance to debug this further?
Thanks,
--
Bastien
^ permalink raw reply [flat|nested] 4+ messages in thread
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2014-06-25 19:55 BUG variable expansion with table Rainer M Krug
2014-06-26 23:25 ` Andreas Leha
2014-06-27 9:48 ` Rainer M Krug
2014-07-28 15:46 ` Bastien
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