setup the model function warning (setup_model_MegaLMM function)

[Yansen0515]

Hi,
I got a warning (please check below) when I run the "setup_model_MegaLMM function".

"Message d'avis :
as(<matrix>, "lgTMatrix") is deprecated since Matrix 1.5-0; do as(as(as(., "lMatrix"), "generalMatrix"), "TsparseMatrix") instead "

Do you think it will make problems for the following work? I met a problem in the "initialize_MegaLMM(MegaLMM_state) " function.

r in (function (cond):
   error evaluating argument 'x' when selecting a method for function 't': Need S4 class dgCMatrix for a mapped sparse matrix

If you know how to solve this problem, please let me know.

Kind regards,
Yansen

[deruncie]

I don’t think the warning was the issue, but I pushed a fix for that. Try re-installing the package and see if the warning and errors go away. From: Yansen CHEN ***@***.***> Date: Friday, March 10, 2023 at 12:54 AM To: deruncie/MegaLMM ***@***.***> Cc: Subscribed ***@***.***> Subject: [deruncie/MegaLMM] setup the model function warning (setup_model_MegaLMM function) (Issue #9) Hi, I got a warning (please check below) when I run the "setup_model_MegaLMM function". "Message d'avis : as(<matrix>, "lgTMatrix") is deprecated since Matrix 1.5-0; do as(as(as(., "lMatrix"), "generalMatrix"), "TsparseMatrix") instead " Do you think it will make problems for the following work? I met a problem in the "initialize_MegaLMM(MegaLMM_state) " function. r in (function (cond): error evaluating argument 'x' when selecting a method for function 't': Need S4 class dgCMatrix for a mapped sparse matrix If you know how to solve this problem, please let me know. Kind regards, Yansen — Reply to this email directly, view it on GitHub<#9>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AB2IDTKSYQCHRJ2Z6YOWNHTW3LT5JANCNFSM6AAAAAAVWEW7N4>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[Yansen0515]

Hello,

I update the MegaLMM package.
Then, I still have the first warning, however, the second error from "initialize_MegaLMM" disappeared.
Thank you for your help.

Kind regards,
Yansen

[deruncie]

That is not what I was expecting! Can you re-post the warning you get? Is it exactly the same? From: Yansen CHEN ***@***.***> Date: Tuesday, March 14, 2023 at 8:41 AM To: deruncie/MegaLMM ***@***.***> Cc: Daniel E Runcie ***@***.***>, Comment ***@***.***> Subject: Re: [deruncie/MegaLMM] setup the model function warning (setup_model_MegaLMM function) (Issue #9) Hello, I update the MegaLMM package. Then, I still have the first warning, however, the second error from "initialize_MegaLMM" disappeared. Thank you for your help. Kind regards, Yansen — Reply to this email directly, view it on GitHub<#9 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AB2IDTMGTRYRRQ34IB2ALNLW4CGTRANCNFSM6AAAAAAVWEW7N4>. You are receiving this because you commented.Message ID: ***@***.***>

[Yansen0515]

Hi，

Yes. It is exactly the same as before.
And I use the same code and data as before (just update he package this time).

Message d'avis :
as(<matrix>, "lgTMatrix") is deprecated since Matrix 1.5-0; do as(as(as(., "lMatrix"), "generalMatrix"), "TsparseMatrix") instead 

Kind regards,
Yansen