ZIP file is a file format that is used for compressing multiple files together into a single file. It is used in an archive file format that supports lossless data compression and reduces storage requirements it also improves data transfer over standard connections. Zip files make the task of sharing multiple files easy by comprising them into one. The ZipFile class contains extractall() and extract() methods which are used for unzipping the files.
unzip all files in a directory python
I would like to write a simple script to iterate through all the files in a folder and unzip those that are zipped (.zip) to that same folder. For this project, I have a folder with nearly 100 zipped .las files and I'm hoping for an easy way to batch unzip them. I tried with following script
Sometimes it can be useful to programmatically create zip archives or extract files from existing archives. Windows PowerShell 5.0 added two cmdlets for doing just that. The Compress-Archive cmdlet enables you to create new archives from folders or individual files and to add files to archives; Extract-Archive can be used to unzip files.
Extracting files from an archive is even easier than creating one. All you need to do is specify the name of the archive and the destination folder for the unzipped files. The command below extracts the contents of the Invoices.zip archive to a folder named InvoicesUnzipped using the Expand-Archive cmdlet.
The mode parameter should be 'r' to read an existingfile, 'w' to truncate and write a new file, 'a' to append to anexisting file, or 'x' to exclusively create and write a new file.If mode is 'x' and file refers to an existing file,a FileExistsError will be raised.If mode is 'a' and file refers to an existing ZIPfile, then additional files are added to it. If file does not refer to aZIP file, then a new ZIP archive is appended to the file. This is meant foradding a ZIP archive to another file (such as python.exe). Ifmode is 'a' and the file does not exist at all, it is created.If mode is 'r' or 'a', the file should be seekable.
Extract a member from the archive to the current working directory; membermust be its full name or a ZipInfo object. Its file information isextracted as accurately as possible. path specifies a different directoryto extract to. member can be a filename or a ZipInfo object.pwd is the password used for encrypted files as a bytes object.
Extract all members from the archive to the current working directory. pathspecifies a different directory to extract to. members is optional and mustbe a subset of the list returned by namelist(). pwd is the passwordused for encrypted files as a bytes object.
If pathname is a file, the filename must end with .py, andjust the (corresponding *.pyc) file is added at the top level(no path information). If pathname is a file that does not end with.py, a RuntimeError will be raised. If it is a directory,and the directory is not a package directory, then all the files*.pyc are added at the top level. If the directory is apackage directory, then all *.pyc are added under the packagename as a file path, and if any subdirectories are package directories,all of these are added recursively in sorted order.
filterfunc, if given, must be a function taking a single stringargument. It will be passed each path (including each individual fullfile path) before it is added to the archive. If filterfunc returns afalse value, the path will not be added, and if it is a directory itscontents will be ignored. For example, if our test files are all eitherin test directories or start with the string test_, we can use afilterfunc to exclude them:
Exceeding limitations on different file systems can cause decompression failed.Such as allowable characters in the directory entries, length of the file name,length of the pathname, size of a single file, and number of files, etc.
In both cases, if path is omitted, files are extracted to the current directory. Although the documentation doesn't specify it, it seems to create a new directory even if path is non-existent (confirmed in Python 3.9.9).
Compressing and extracting files is not only common on desktop computers. You may need to do the same things on your VPS. Zipping and unzipping files make it easy for you to download and move data around.
While coding, we download several data in ZIP format. We need to extract these files to use them. If there are multiple ZIP files, extract each one separately is a tedious process. To ease this in Linux, we have presented over 5 methods to unzip multiple ZIP files together at once.
There may be a case when you want to unzip each ZIP file into a new directory with directory name same as the ZIP filename. This is not possible with a single command but we can develop a small working BASH script to do the task.
This can be achieved by updating the unzip_file() function to receive a list of files to unzip, and splitting up the files in the main() function into chunks to be submitted to worker threads for batch processing.
First, we can update the unzip_file() function to take the name of the zip file instead of the file handle. Then open the zip file before then unzipping a single file to the destination directory.
In this case, we will use 8 processes and split the 1,000 files to unzip evenly giving 125 files to unzip per process. It may be interesting to explore different divisions of work among the processes.
The unzip_files() function can be updated to call the ZipFile.extractall() function directly, specifying the directory in which the files are to be extracted and a list of names of files to extract from the archive.
We have already covered the zip command, which is used to create zip files. This guide covers unzip, which is used to extract zip files. There are quite a few options that you can use to tweak the behavior of the unzip command.
By default, whenever unzip needs to overwrite a file, it will prompt you with a few options. If you rather tell it from the outset to overwrite all existing files, you can use the -o option. However, it is recommended that you use this option carefully as it will irreversibly change data.
Python function to stream unzip all the files in a ZIP archive, without loading the entire ZIP file into memory or any of its uncompressed files. Deflate and Deflate64/Enhanced Deflate ZIPs are supported, as well as AES and legacy (ZipCrypto/Zip 2.0) encrypted/password-protected ZIPs.
While the ZIP format does have its main directory at the end, each compressed file in the archive is prefixed with a header that contains its name. Also, the Deflate algorithm that most ZIP files use indicates when it has reached the end of the stream of a member file. These facts make the streaming decompression of ZIP archives possible.
Unzip the installer. If your Linux distribution doesn't have a built-in unzip command, use an equivalent to unzip it. The following example command unzips the package and creates a directory named aws under the current directory.
Run the install program. The installation command uses a file named install in the newly unzipped aws directory. By default, the files are all installed to /usr/local/aws-cli, and a symbolic link is created in /usr/local/bin. The command includes sudo to grant write permissions to those directories.
This time, we have imported the os module and used its walk() method to go over all files and subfolders inside our original folder. I am only compressing the pdf files in the directory. You can also create different archived files for each format using if statements.
You can use the extractall() method to extract all the files and folders from a zip file into the current working directory. You can also pass a folder name to extractall() to extract all files and folders in a specific directory. If the folder that you passed does not exist, this method will create one for you. Here is the code that you can use to extract files:
As is evident from this tutorial, using the zipfile module to compress files gives you a lot of flexibility. You can compress different files in a directory to different archives based on their type, name, or size. You also get to decide whether you want to preserve the directory structure or not. Similarly, while extracting the files, you can extract them to the location you want, based on your own criteria like size, etc.
You can use the unzip Bash command to expand files or directories of files that have been Zip compressed. If you download or encounter a file or directory ending with .zip, expand the data before trying to continue.
The zip and unzip commands are default to the Raspberry Pi OS, so no need to install them explicitly. The command is also straightforward. Just enter unzip then the file name of the archive file. The compressed files inside will go to your current directory in no particular order.
Find files in the current working directory. The step returns an array of file info objects who's properties you can see in the below example. Ex: def files = findFiles(glob: '**/TEST-*.xml') echo """$files[0].name $files[0].path $files[0].directory $files[0].length $files[0].lastModified"""
Read the content of the files into a Map instead of writing them to the workspace. The keys of the map will be the path of the files read. E.g. def v = unzip zipFile: 'example.zip', glob: '*.txt', read: true String version = v['version.txt']
There are several popular apps and tools that exist for zipping and unzipping: PKZIP in the Disk Operating System (DOS), WinZip or 7-Zip for Windows, MacZip for macOS and Files in Android. Users can also extract files by dragging them out of the zipped folder.
Why do you need to unzip the fastq files? In most cases it is better to keep them compressed. Most NGS tools can handle compressed files directly, and it is generally faster to read a compressed file than an uncompressed one.
You don't have to put files into a directory before archiving them, but it's considered poor etiquette not to, because nobody wants 50 files scattered out onto their desktop when they unarchive a directory. These kinds of archives are sometimes called a tarbomb, although not always with a negative connotation. Tarbombs are useful for patches and software installers; it's just a matter of knowing when to use them and when to avoid them. 2ff7e9595c
Comentarios