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[mchiapello]

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[ssvegahe]

Hi. I´ve tried to install Ramf but I can not get it.
Appeared this message:

Installing package into ‘C:/Users/SEBASTIAN/Documents/R/win-library/4.0’
(as ‘lib’ is unspecified)

• installing source package 'Ramf' ...
  ** using staged installation
  ** R
  ** data
  *** moving datasets to lazyload DB
  ** inst
  ** byte-compile and prepare package for lazy loading
  Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) :
  namespace 'ellipsis' 0.3.1 is already loaded, but >= 0.3.2 is required
  Calls: ... asNamespace -> loadNamespace -> namespaceImport -> loadNamespace
  Ejecución interrumpida
  ERROR: lazy loading failed for package 'Ramf'
• removing 'C:/Users/SEBASTIAN/Documents/R/win-library/4.0/Ramf'
  Warning message:
  In i.p(...) :
  installation of package ‘C:/Users/SEBAST~1/AppData/Local/Temp/RtmpW05qUV/file116c491f4647/Ramf_1.1.1.tar.gz’ had non-zero exit status

How Can I solve it?

Sergio Vega-Herrera

[mchiapello]

Hello @ssvegahe and thank to try to use Ramf.

As far as I can see, the problem is not Ramf but a package called ellipsis. My advice is to install the last version of R and try again to install Ramf. If the problem persist, please, do not hesitate to contact me.

[ssvegahe]

Hello @mchiapello.
It´s working. Thank you so much!!!

[ssvegahe]

Hello,
I have a new problem in evaluating the substrates

When I ran from your df database with respect to the substrates

     Samples Replicates Total  trt

1 Low phosphate A 88 Sand
2 Low phosphate B 95 Sand
3 Low phosphate C 87 Sand
4 Low phosphate D 74 Sand
5 Low phosphate E 95 Sand
6 Low phosphate F 93 Sand
7 Low phosphate G 80 Sand
8 High phosphate A 21 Sand
9 High phosphate B 7 Sand
10 High phosphate C 5 Sand
11 High phosphate D 18 Sand
12 High phosphate E 7 Sand
13 High phosphate F 17 Sand
14 High phosphate G 2 Sand
15 Low phosphate A 78 ST
16 Low phosphate B 87 ST
17 Low phosphate C 60 ST
18 Low phosphate D 71 ST
19 Low phosphate E 58 ST
20 High phosphate A 60 ST
21 High phosphate B 57 ST
22 High phosphate C 60 ST
23 High phosphate D 41 ST
24 High phosphate E 60 ST
25 Low phosphate A 92 SC
26 Low phosphate B 95 SC
27 Low phosphate C 98 SC
28 Low phosphate D 94 SC
29 Low phosphate E 91 SC
30 High phosphate A 76 SC
31 High phosphate B 83 SC
32 High phosphate C 93 SC
33 High phosphate D 92 SC
34 High phosphate E 83 SC

I ran two-way anova normally, but when I ran one-way anova for each substrate.
An error appears in the message for each sustrates

Sand

am_anova_grid(Sand, col = "Total")

Error in data.frame(y, trt) : object 'Sand' not found

Sand Terragreen

am_anova_grid(ST, col = "Total")

Error in data.frame(y, trt) : object 'ST' not found

Sand Calcine clay

am_anova_grid(SC, col = "Total")

Error in data.frame(y, trt) : object 'SC' not found

I have tried many ways to solve it, but I couldn´t

What can I do?

[mchiapello]

Hello Sergio, as far as I can see from the error message, the function (am_anova_grid) does not find the data object. So, the first argument in parenthesis should be the dataset containing all your data and not the name of the treatment. These functions are not very well supported and you need a bit of workaround to make them work properly. Please try: library(Ramf) # Saved you files as csv x <- read_csv("delete.csv") # Add class grid to data class(x) <- c("grid", class(x)) # One-way anova am_2anova_grid(x, "Total") Let me know whether this works for you, M Il giorno mar 6 set 2022 alle ore 13:19 Sergio Sebastian Vega-Herrera < ***@***.***> ha scritto:

…

Hello, I have a new problem in evaluating the substrates When I ran from your df database with respect to the substrates Samples Replicates Total trt 1 Low phosphate A 88 Sand 2 Low phosphate B 95 Sand 3 Low phosphate C 87 Sand 4 Low phosphate D 74 Sand 5 Low phosphate E 95 Sand 6 Low phosphate F 93 Sand 7 Low phosphate G 80 Sand 8 High phosphate A 21 Sand 9 High phosphate B 7 Sand 10 High phosphate C 5 Sand 11 High phosphate D 18 Sand 12 High phosphate E 7 Sand 13 High phosphate F 17 Sand 14 High phosphate G 2 Sand 15 Low phosphate A 78 ST 16 Low phosphate B 87 ST 17 Low phosphate C 60 ST 18 Low phosphate D 71 ST 19 Low phosphate E 58 ST 20 High phosphate A 60 ST 21 High phosphate B 57 ST 22 High phosphate C 60 ST 23 High phosphate D 41 ST 24 High phosphate E 60 ST 25 Low phosphate A 92 SC 26 Low phosphate B 95 SC 27 Low phosphate C 98 SC 28 Low phosphate D 94 SC 29 Low phosphate E 91 SC 30 High phosphate A 76 SC 31 High phosphate B 83 SC 32 High phosphate C 93 SC 33 High phosphate D 92 SC 34 High phosphate E 83 SC I ran two-way anova normally, but when I ran one-way anova for each substrate. An error appears in the message for each sustrates Sand am_anova_grid(Sand, col = "Total") Error in data.frame(y, trt) : object 'Sand' not found Sand Terragreen am_anova_grid(ST, col = "Total") Error in data.frame(y, trt) : object 'ST' not found Sand Calcine clay am_anova_grid(SC, col = "Total") Error in data.frame(y, trt) : object 'SC' not found I have tried many ways to solve it, but I couldn´t What can I do? — Reply to this email directly, view it on GitHub <#13 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEOPSNXSEAHIVBOUV5SDC33V44SDRANCNFSM4UTBLGYQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[ssvegahe]

Hi @mchiapello.

I tried to do it with your suggestions, but it doesn't work.
I keep getting the error message when I ran the function below:

am_anova_grid(Sand, col = "Total")
Error in data.frame(y, trt) : object 'Sand' not found

Sergio

[mchiapello]

Could you please share all your script? So, I can debug it. Thank you, M Il giorno gio 8 set 2022 alle ore 04:36 Sergio Sebastian Vega-Herrera < ***@***.***> ha scritto:

…

Hi @mchiapello <https://github.com/mchiapello>. I tried to do it with your suggestions, but it doesn't work. I keep getting the error message when I ran the function below: am_anova_grid(Sand, col = "Total") Error in data.frame(y, trt) : object 'Sand' not found Sergio — Reply to this email directly, view it on GitHub <#13 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEOPSNT5F6MEOTLWYK6CALLV5FGLDANCNFSM4UTBLGYQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[ssvegahe]

I am sharing the file with script and database

https://github.com/ssvegahe/Ramf

[mchiapello]

Hello Sergio, I created a PR on your github repo. In the PR, you can find a possible fix for you code. Please, let me know whether I solve your problem. Do not hesitate to drop me an email if needed. Best, m Il giorno ven 9 set 2022 alle ore 18:30 Sergio Sebastian Vega-Herrera < ***@***.***> ha scritto:

…

I am sharing the file with script and database https://github.com/ssvegahe/Ramf — Reply to this email directly, view it on GitHub <#13 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AEOPSNUINYYDDTV3ZYRCJKTV5NQ3JANCNFSM4UTBLGYQ> . You are receiving this because you were mentioned.Message ID: ***@***.***>

[ssvegahe]

Hello,

It´s working now.

Thanks

[madelainegregory]

I am using the trouvelot scoring method and keep running into an error that I am unsure how to fix. After running the am_stat function I receive "Error in if (pvalue[k] <= 0.001) sig[k] <- "***" else if (pvalue[k] <= :
missing value where TRUE/FALSE needed". I have tried many different combinations and attempted to look online but have had no look. Any advice how I can fix this?

[mchiapello]

Hello!
you have to provide me a reproducible example. I need your data and the code you used to try to debug the issue.

Thank you,
M

[madelainegregory]

Hi Marco, Sorry for the late reply, this email went to my spam for some reason. Here is the data sheet and the code I have gotten so far. The last line is where I am experiencing some trouble. Thankyou for taking the time to look into this! Best, Madelaine

…

On Thu, Jun 8, 2023 at 4:50 AM Marco Chiapello ***@***.***> wrote: Hello! you have to provide me a reproducible example. I need your data and the code you used to try to debug the issue. Thank you, M — Reply to this email directly, view it on GitHub <#13 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BAMSJWWSSYBXFV23MSWKGV3XKGG6ZANCNFSM4UTBLGYQ> . You are receiving this because you commented.Message ID: ***@***.***>

-- ******************************************************** *Madelaine Gregory | (she/her/hers)* University of Dayton | College of Arts and Sciences M.S in Environmental Biology | SC 137 ***@***.***| 937-301-0282 **********************************************************

[mchiapello]

Hi Madelaine!
Sorry, but I cannot see the data and the code.

[madelainegregory]

Hi Marco, Sorry about that! When I send it like this does it work for you?

…

On Tue, Jun 20, 2023 at 10:35 AM Marco Chiapello ***@***.***> wrote: Hi Madelaine! Sorry, but I cannot see the data and the code. — Reply to this email directly, view it on GitHub <#13 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/BAMSJWQOPLSCKAOLES3KZ3LXMGYJ5ANCNFSM4UTBLGYQ> . You are receiving this because you commented.Message ID: ***@***.***>

-- ******************************************************** *Madelaine Gregory | (she/her/hers)* University of Dayton | College of Arts and Sciences M.S in Environmental Biology | SC 137 ***@***.***| 937-301-0282 **********************************************************

[mchiapello]

Unfortunately, in the discussion thread is not possible to add attachments. Please add them in the issue or just email them to me.