joannawolthuis
commented
3 years ago Hi Dirowa! Thanks for your interest :) I'm currently working on a major update to R 4.0 which should address most concerns, will message you here once it's up! If you are on the R version, you may want to try the dev branch and see if that works first while I finish the update up :)
Kind regards, Joanna
Dirowa
Hi Joannawholthuis,I have a problem with analysing the test data.
When i try to normalize the data i get an error that the normalization failed. in Rstudio i get this notficiation:
`[1] "Importing pos mode peaks!" sample label 100.076RT96.683782 100.08RT127.518202 100.08RT219.182473 1: 100001 Control 1877.553713999999899897 151.4858120000000099026 108.52308499999999469310 2: 10001 Case 1351.942812000000003536 487.7450051000000144086 142.52086850000000595173 3: 1001 Control 1323.803707999999915046 619.6351151000000072600 325.24268740000002253510 4: 100801 Control 1193.458364000000074157 181.3887350999999910073 83.63113115000000163946 5: 100901 Case 2464.131257999999888852 1595.4459030000000439031 62.16739582999999669255 [1] "Importing neg mode peaks!" sample label 100.00RT247.781398 100.00RT126.653248 100.00RT190.686723 1: 100001 Control 2361.0071459999999206048 231.5613395000000025448 44.29015443000000118445 2: 10001 Case 2887.7163310000000819855 631.9513980000000401560 30.30061462999999832846 3: 1001 Control 707.7640709999999444335 56.7936874900000034927 4633.63777599999957601540 4: 100801 Control 897.4113422000000355183 367.2238935999999966953 24.40904670999999837022 5: 100901 Case 1481.5350559999999404681 105.5868203999999934695 1328.55965399999990950164 Starting Rserve: /usr/lib/R/bin/R CMD /home/thor/R/x86_64-pc-linux-gnu-library/4.0/Rserve/libs//Rserve --no-save
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R.
Rserv started in daemon mode.
> SOCK_ERROR: bind error #98(address already in use)
[1] "MetaboAnalyst R objects initialized ..." [1] "Successfully passed sanity check!"
"Samples are not paired."
"3 groups were detected in samples."
"Only English letters, numbers, underscore, hyphen and forward slash (/) are allowed." "<font color=\"orange\">Other special characters or punctuations (if any) will be stripped off." "All data values are numeric." "A total of 760 (0%) missing values were detected."
"By default, missing values will be replaced by 1/5 of min positive values of their corresponding variables" "Click the Skip button if you accept the default practice;"
"Or click the Missing value imputation to use other methods."
Error in timerProgressBar(min = min, max = max, initial = control$initial, : must have 'max' > 'min'`
i tried to play with different test data and settings to resolve the error, in the hope it is just an setting error i,m sorry if this isn't the right protocol of documentation for errors i,m guite new to github and coding.