Issue with rpy2

[pardaz-banu]

Hello,

I am trying to run the code for Causal Discovery using RL and i am getting below error with rpy2, though i have installed dependencies using setup_CAM.py

Selection: 1
R packages CAM has been successfully installed.
importing R packages CAM and mboost
Traceback (most recent call last):
File "/Users/pardazbanumohammad/trustworthyAI/research/Causal Discovery with RL/src/main.py", line 22, in
from helpers.cam_with_pruning_cam import pruning_cam
File "/Users/pardazbanumohammad/trustworthyAI/research/Causal Discovery with RL/src/helpers/cam_with_pruning_cam.py", line 32, in
cam = rpackages.importr('CAM')
File "/opt/anaconda3/envs/causalGraph/lib/python3.10/site-packages/rpy2/robjects/packages.py", line 472, in importr
raise PackageNotInstalledError(
rpy2.robjects.packages.PackageNotInstalledError: The R package "CAM" is not installed.
R[write to console]: Warning message:

R[write to console]: package ‘CAM’ is not available for this version of R

A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages

[shaido987]

Hi @pardaz-banu, it looks like CAM is still not properly installed. Did you download the CAM_1.0.tar.gz file?

You can see if following the steps here helps to fix the issue: #34 (comment)

[pardaz-banu]

Hello, I am facing the following issue when i try the steps that are mentioned in #34 comment. Packages not installed correctly. Thought i have installed all the dependencies

library(Matrix) library(mgcv)

*Loading required package: nlme* *This is mgcv 1.9-1. For overview type 'help("mgcv-package")'.*

library(codetools) library(rpart) library(glmnet)

*Loaded glmnet 4.1-8*

library(mboost)

*Loading required package: parallel* *Loading required package: stabs* *Attaching package: ‘mboost’* *The following object is masked from ‘package:glmnet’:* * Cindex*

…

On Thu, Mar 13, 2025 at 8:11 PM Marcus Kalander ***@***.***> wrote: Hi @pardaz-banu <https://github.com/pardaz-banu>, it looks like CAM is still not properly installed. Did you download the CAM_1.0.tar.gz file? You can see if following the steps here helps to fix the issue: #34 (comment) <#34 (comment)> — Reply to this email directly, view it on GitHub <#179 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKX7R3JOKLUVLIM5CD5FMIT2UIUEFAVCNFSM6AAAAABY7BSBFCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDOMRTGA3TGNJXGA> . You are receiving this because you were mentioned.Message ID: ***@***.***> [image: shaido987]*shaido987* left a comment (huawei-noah/trustworthyAI#179) <#179 (comment)> Hi @pardaz-banu <https://github.com/pardaz-banu>, it looks like CAM is still not properly installed. Did you download the CAM_1.0.tar.gz file? You can see if following the steps here helps to fix the issue: #34 (comment) <#34 (comment)> — Reply to this email directly, view it on GitHub <#179 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKX7R3JOKLUVLIM5CD5FMIT2UIUEFAVCNFSM6AAAAABY7BSBFCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDOMRTGA3TGNJXGA> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[shaido987]

If I understand your output correctly, you have successfully installed the prerequisite packages. But there is no mention of the CAM package. Did you download the file and install it? You can try with library("CAM").

[pardaz-banu]

Yes i have installed everything. I found the issue is that the CAM is downloaded and installed in another directory. Now all dependencies are successfully installed.

Thank you!

[shaido987]

Nice! Happy to help.

[pardaz-banu]

Hello, I am having trouble while running the code with synthetic dataset. [image: Screenshot 2025-03-16 at 10.04.52 AM.png] When i run it, it is saying that [image: Screenshot 2025-03-16 at 10.06.32 AM.png] I have synthetic datasets [image: Screenshot 2025-03-16 at 10.07.30 AM.png]

…

On Sat, Mar 15, 2025 at 7:42 AM Marcus Kalander ***@***.***> wrote: Nice! Happy to help. — Reply to this email directly, view it on GitHub <#179 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKX7R3LSCTSPCMPNVTCUQ5T2UQN2ZAVCNFSM6AAAAABY7BSBFCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDOMRWGQ4TONRTHA> . You are receiving this because you modified the open/close state.Message ID: ***@***.***> [image: shaido987]*shaido987* left a comment (huawei-noah/trustworthyAI#179) <#179 (comment)> Nice! Happy to help. — Reply to this email directly, view it on GitHub <#179 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKX7R3LSCTSPCMPNVTCUQ5T2UQN2ZAVCNFSM6AAAAABY7BSBFCVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDOMRWGQ4TONRTHA> . You are receiving this because you modified the open/close state.Message ID: ***@***.***>

[shaido987]

Hi, your images were not uploaded correctly for some reason.

[pardaz-banu]

Hi, when i run the encoder it is taking input shape and giving NoneType for the input in the TransformerEncoder.

Am i taking wrong way of input?

[shaido987]

Right, it looks like something is wrong with the input. Could you confirm that the data looks fine after reading it? After these lines:

trustworthyAI/research/Causal Discovery with RL/src/main.py

Lines 69 to 74 in bd9cac2

	if config.read_data:
	file_path = '{}/data.npy'.format(config.data_path)
	solution_path = '{}/DAG.npy'.format(config.data_path)
	training_set = DataGenerator_read_data(file_path, solution_path, config.normalize, config.transpose)
	else:
	raise ValueError("Only support importing data from existing files")