#Python read from txt write to csv code#

Is the opened file object, and which variable contains the read-in data. Variable names each time will make it easier for you to keep track of which variable is the name of the file, which variable It is a good idea to develop some consistent habits about the way you open and read files.

#Python read from txt write to csv code#

Use consistent names to make your code clearer Once we have read the data in the file into our variable data, we can treat it like any other variable in our code. read () #Print the data in the file print ( data ) #close the file infile. #Create a variable for the file name filename = 'Plates_output_simple.csv' #This is simply a string of text #Open the file infile = open ( filename, 'r' ) # 'r' says we are opening the file to read, infile is the opened file object that we will read from #Store the data from the file in a variable data = infile. Here is an example of opening, reading, and closing a file. Finally, to gain any information from the book, you have to read the words (the read Then, you have to go and get it off the shelf and open theīook up (the open function). First, you have to go to theĬatalog or database to find out which book you need (the filename). You can think of these three steps as being similar to checking out a book from the library.

When we are done, we should remember to close the file!.

We will call a function to actually read the data in the file and store it in a variable so that we can process it.

We will create a variable to hold the name of the file that we want to open.

We will open and read the file in three steps. Opening and reading files is a three-step process We will read in this data file and then work to analyze the data.

The percentage of the plate covered by bacterial colonies.

The observation timepoint (either 24 or 48 hours).

The growth condition (either control or experimental).

The plate number (there were 4 plates, with each plate imaged at two different time points).

The name of the image from which the data was collected.

If we look at theĬolumn headings, we can see that we have collected data for each plate: Each row represents a single plate image. The file contains one header row, followed by eight rows of data. csv, which stands for comma-separated values). If you open the file in a spreadsheet program such as LibreOfficeCalc or Excel, youĬan see that the file is organized into columns, with each column separated by the commas in the image above (hence the fileĮxtension. However, this is fairly difficult to read. That the file contains several lines of text. If you open the file in a text editor, you will see Let’s open and examine the structure of the file Plates_output_simple.csv.

As you are working, make sure that you save your file opening script(s) to this directory.

Make sure that your working directory is also set to the folder home/Desktop/workshops/YourName.

Copy the file to your working directory, home/Desktop/workshops/YourName.

Locate the file Plates_output_simple.csv in the directory home/Desktop/workshops/bash-git-python.

We will work with the practice file Plates_output_simple.csv. Or, when we provide the file name, we can give a complete path to the file.

In Spyder, we can do this by setting our current working directory to the folder where theįile is located. In order to open a file, we need to tell Python exactly where the file is located, relative to where Python is currently What you learn in this lesson can be applied to any general text file. Right now, we will practice working with a comma-delimited text file (.csv) that contains several columns of data. Writing files allows us to process our data and then save the output to Understand the difference between the file name, the opened file object, and the data read in from the fileīe able to write output to a text file with simple formattingīeing able to open and read in files allows us to work with larger data sets, where it wouldn’t be possible to type in each andĮvery value and store them one-at-a-time as variables. Be able to open a file and read in the data stored in that file