Question: Error in file(file, "rt") : cannot open the connection - Using ExiMir Package
0
gravatar for 31sharmajittu1991
3.3 years ago by
India
31sharmajittu19910 wrote:

Hey, I am new in this R world. I am doing work on MicroRNA dataset with ExiMir package. My dataset is in the form of ImaGene TXT format. As described in the package, I make a folder named Exiqon and paste all relevant data there, set working directory on R and start working. But when I want to read all my files it shows error -  Error in file (file, "rt") : cannot open the connection. I check my current working directory, set all files clearly there still facing the same issue. 

I use this code

 

make.gal.env(galname = 'galenv')

ebatch <- ReadExi(txtfile.path = "D:/R/Exiqon", galname = "galenv")

 

and get the error

 

Read header information
Read D:/R/Exiqon/GSM1302311_0_Exiqon_14173049_S01.txt 
Error in file(file, "rt") : cannot open the connection
In addition: Warning message:
In file(file, "rt") :
cannot open file 'D:/R/Exiqon/NA': No such file or directory

 

What should I do now? Maybe the issue in gal file or in sampleinfo.txt file, but I fail to understand the problem.

Thank you in advance.

microrna eximir R • 1.9k views
ADD COMMENTlink written 3.3 years ago by 31sharmajittu19910

My samplesinfo file has Hy3 txt file but I don't have Hy5 file in my dataset. Is this creating error? 

ADD REPLYlink written 3.3 years ago by 31sharmajittu19910
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 344 users visited in the last hour