How to use sox with an audio file list - linux

I'd like to merge several audio files. (I'm familiar with using command line tools, but have only rudimentary shell skills.)
Unlike other batch processing command line tools, sox doesn't seem to have a parameter that allows to specify a input file list.
According to the sox documentation, files can be merged using the following command:
sox -m input1 input2 ... inputN output
They also mention that file names can be piped from other apps but don't give any specific examples.
So how do I specify a text file that contains a list of the files to be merged as the input?
BTW, the format of the text file is:
fileRandomID1.wav
fileRandomID2.wav
fileRandomID3.wav
and all files need to be merged in the order in which they're listed in the text file.

If you have a list of the files that you want merged in MergeList.txt and it looks like this:
fileRandomID1.wav
fileRandomID2.wav
fileRandomID3.wav
You can do:
sox -m $(cat MergeList.txt) output.wav

Related

Read only nth first lines [sublime text]

I've got some files so big to directly open them in Sublime Text. Is there any way to open only the nth first lines? Something like head in bash? Thanks
If you're on Linux or Mac, or have Cygwin, Git Bash, or similar installed on a Windows machine, check out the split utility, which is part of the coreutils package. It does exactly what it says: it splits input into separate files. It is configurable via command-line options, like every Unix utility. For example, if you wanted to split your input file into separate 10,000-line files starting with notsobigfile and using numeric suffixes ending with .txt, you would run
split -d -l 10000 --additional-suffix=".txt" reallybigfile.txt notsobigfile
and it would output files named notsobigfile01.txt, notsobigfile02.txt, etc. If this would generate more than 100 files (00 through 99), just add -a x where x is the number of digits (the default is 2).
For all the possible options, just read the man page:
man split
If you only want to output the first part of the file, check out the options for the -n/--number flag.
To figure out how many lines your input file has, run the word counting utility using the lines option:
wc -l reallybigfile.txt

Splitting large tar file into multiple tar files

I have a tar file which is 3.1 TB(TeraByte)
File name - Testfile.tar
I would like to split this tar file into 2 parts - Testfil1.tar and Testfile2.tar
I tried the following so far
split -b 1T Testfile.tar "Testfile.tar"
What i get is Testfile.taraa(what is "aa")
And i just stopped my command. I also noticed that the output Testfile.taraa doesn't seem to be a tar file when I do ls in the directory. It seems like it is a text file. May be once the full split is completed it will look like a tar file?
The behavior from split is correct, from man page online: http://man7.org/linux/man-pages/man1/split.1.html
Output pieces of FILE to PREFIXaa, PREFIXab, ...
Don't stop the command let it run and then you can use cat to concatenate (join) them all back again.
Examples can be seen here: https://unix.stackexchange.com/questions/24630/whats-the-best-way-to-join-files-again-after-splitting-them
split -b 100m myImage.iso
# later
cat x* > myImage.iso
UPDATE
Just as clarification since I believe you have not understood the approach. You split a big file like this to transport it for example, files are not usable this way. To use it again you need to concatenate (join) pieces back. If you want usable parts, then you need to decompress the file, split it in parts and compress them. With split you basically split the binary file. I don't think you can use those parts.
You are doing the compression first and the partition later.
If you want each part to be a tar file, you should use 'split' first with de original file, and then 'tar' with each part.

Is it possible to partially unzip a .vcf file?

I have a ~300 GB zipped vcf file (.vcf.gz) which contains the genomes of about 700 dogs. I am only interested in a few of these dogs and I do not have enough space to unzip the whole file at this time, although I am in the process of getting a computer to do this. Is it possible to unzip only parts of the file to begin testing my scripts?
I am trying to a specific SNP at a position on a subset of the samples. I have tried using bcftools to no avail: (If anyone can identify what went wrong with that I would also really appreciate it. I created an empty file for the output (722g.990.SNP.INDEL.chrAll.vcf.bgz) but it returns the following error)
bcftools view -f PASS --threads 8 -r chr9:55252802-55252810 -o 722g.990.SNP.INDEL.chrAll.vcf.gz -O z 722g.990.SNP.INDEL.chrAll.vcf.bgz
The output type "722g.990.SNP.INDEL.chrAll.vcf.bgz" not recognised
I am planning on trying awk, but need to unzip the file first. Is it possible to partially unzip it so I can try this?
Double check your command line for bcftools view.
The error message 'The output type "something" is not recognized' is printed by bcftools when you specify an invalid value for the -O (upper-case O) command line option like this -O something. Based on the error message you are getting it seems that you might have put the file name there.
Check that you don't have your input and output file names the wrong way around in your command. Note that the -o (lower-case o) command line option specifies the output file name, and the file name at the end of the command line is the input file name.
Also, you write that you created an empty file for the output. You don't need to do that, bcftools will create the output file.
I don't have that much experience with bcftools but generically If you want to to use awk to manipulate a gzipped file you can pipe to it so as to only unzip the file as needed, you can also pipe the result directly through gzip so it too is compressed e.g.
gzip -cd largeFile.vcf.gz | awk '{ <some awk> }' | gzip -c > newfile.txt.gz
Also zcat is an alias for gzip -cd, -c is input/output to standard out, -d is decompress.
As a side note if you are trying to perform operations on just a part of a large file you may also find the excellent tool less useful it can be used to view your large file loading only the needed parts, the -S option is particularly useful for wide formats with many columns as it stops line wrapping, as is -N for showing line numbers.
less -S largefile.vcf.gz
quit the view with q and g takes you to the top of the file.

SoX Not Reading Wav

I've got a large (5Gb) WAV 64 file that I'm trying to analyse with SoX. On doing;
sox /file/ -n stats
it tells me;
sox FAIL formats: can't open input file '/file/': WAVE: RIFF header not found
On attempting to specify;
sox /file/ -t w64 -n stats
it says;
sox WARN sox: ignoring `-t w64'.
and proceeds to throw the same error as before. This file is W64. How do I convince SoX to accept it?
Looks like ffmpeg can handle wav64 files
Have you tried to create your own tiny wav64 file and see if you can read that ?
Looks like wav64 is targeted for multichannel audio is that your use case ? WAV format itself is very simple and lends itself to allowing people to write two pages of code to read any wav file ... if you exhaust all other options and your life depended on getting your file read, reading the ISO spec or similar on wav64 format then writing your own reader is an option.
Can you share how your wav64 file was created ? Maybe one of us can replicate its creation and battle how to read it back
If its not full of massive multi-channel audio is getting it converted to normal wav an option ?
Maybe, your wave64 file is invalid. A valid one should contain a riff header.
You've added -t w64 flag after the filename. That's why it's ignored.
# This would work! [CHECKED]
# If your file is valid!
sox -t w64 in_file -n stats

midi to ogg - pipeline distortion

I am trying to convert midi files to ogg or mp3. Eventually this will happen on a linux webserver but currently I am using a Windows 7 machine. I am using timidity to convert the midi to wav and then either sox or ffmpeg to convert the wav to ogg/mp3.
When I use an intermediate file the process works fine (in the first line below timidity creates file.wav)
timidity.exe file.mid -Ow
sox.exe file.wav file.ogg
However, when I try to pipe the timidity output into sox (as below), the resulting file ogg is horribly distorted
timidity.exe file.mid -Ow -o - | sox.exe -t wav - file.ogg
and I get a warning
sox.exe WARN wav: Premature EOF on .wav input file
I also get the same distortion problem when I replace sox with ffmpeg (and the appropriate command line options), or when I replace ogg with mp3 as the output format.
So what am I doing wrong?
Thanks,
Chris
Regarding the warning itself, you're doing nothing wrong. You may also see a warning from timidity that reads something like
Warning: -: Illegal seek: Can't make valid header
What's happening there is explained in the timidity manual page:
If output is directed to a non-seekable file, or if TiMidity++ is interrupted before closing the file, the file header will contain 0xffffffff in the RIFF and data block length fields.
Note that RIFF is the encoding format commonly called by its file extension, .wav. When timidity writes a RIFF file, it doesn't know how long the file will be, so it writes some placeholder junk in the header and moves on to writing the data. When it finishes with the data, it knows how long the file is, so it goes back to the beginning of the file and writes over that junk in the header. When you write to a pipe, it has no way to go back and rewrite anything: the downstream program has to handle the placeholder junk. Also from the timidity manual page:
The popular sound conversion utility sox is able to read such malformed files, so you can pipe data directly to sox for on-the-fly conversion to other formats.
Thus, the message you mentioned. Sox is informing you that the chef prepared the file wrong BUT SOX IS HAPPY TO EAT IT ANYWAY BECAUSE SOX IS NOT PICKY. Sox is apparently passive-aggressive. Who knew?
You can ignore those warning messages, because now they are telling you something you already know. Or, you can use a raw format and explicitly tell timidity and sox how to play well with one another:
timidity file.midi -Or1Ssl -s44.1 -o- | sox -t raw -b 16 -e signed -r 44.1k -c 2 - file.ogg
As for the distortion, that may be caused in part by quirks in the audio libraries on the Windows system. I note that the pipeline in the question, sans .exe extensions, produces output with no notable distortion on a linux system. Using a well-defined raw format in the pipeline may also help with that issue.
Note that for Ogg output, you can now get that directly from timidity:
timidity file.midi -o file.ogg -Ov

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