read regex from ID file, print regex and line below from source file
I have a file of protein sequences with headers (my source file). Based on a list of IDs (which are included in some of the headers), I'd like to print out only the specified sequences, with only the ID as header.
In other words, I'd like to search source.txt for the terms in IDs.txt, and print the ID as well as the sequence. Ideally the process would continue even if an ID is not found in the source file. All headers in source.txt are of similar format.
I am able to pull out the sequences based on the ID one-by-one, but this is slow and doesn't give me the header.
I also tried extracting the entire header and the sequence by modifying a script I had for a sequence file with different header type, but again it's one-by-one it only prints the header.
As is probably clear, I'm still pretty low on the learning curve. Any help would be really appreciated!
Hello,
I have a file which has user information. Each user has 2 variables with the same name like
Email: testuser1
Email: testuser1@test.com
Email: testuser2
Email: testuser2@test.com
My intention is to delete the ones without the '@' symbol. When I run this statement awk '/^Email:/&&!/@/'... (6 Replies)
I have a .csv file which is seperated with (;)
inputfile
---------
ZZZZ;AAAA;BBB;CCCC;DDD;EEE;
YYYY;BBBB;CCC;DDDD;EEE;FFF;
...
...
reading file line by line till end of file.
while reading each line output format should be .
i need to print only specific columns let say 5th... (2 Replies)
I have a file that looks like this:
cat includes
CORP-CRASHTEST-BU
e:\crashplan\
CORP-TEST
/usr/openv/java
/usr/openv/logs
/usr/openv/man
CORP-LABS_TEST
/usr/openv/java
/usr/openv/logs
/usr/openv/man
What I want to do is make three new files with just those selections. So the three... (4 Replies)
Good day,
I have a list of regular expressions in file1. For each match in file2, print the containing line and the line after.
file1:
file2:
Output:
I can match a regex and print the line and line after
awk '{lines = $0} /Macrosiphum_rosae/ {print lines ; print lines } '
... (1 Reply)
Hi experts,
I have a file with regexes which is used for automatic searches on several files (40+ GB).
To do some postprocessing with the grep result I need the matching line as well as the match itself.
I know that the latter could be achieved with grep's -o option. But I'm not aware of a... (2 Replies)
I have a file1.txt with several 100k lines, each of which has a column 9 containing one of 60 "label" identifiers. Using an labels.txt file containing a list of labels, I'd like to extract 200 random lines from file1.txt for each of the labels in index.txt.
Using a contrived mini-example:
$ cat... (8 Replies)
I have a line that I need to parse through and extract a pattern that occurs multiple times in it.
Example line:
getInfoCall: info received please proceed, getInfoCall: info received please proceed, getInfoCall: info received please proceed, getInfoCall: info received please proceed,... (4 Replies)
Hello.
I have been looking high and low for the solution for this. I seems there should be a simple answer, but alas.
I have a big xml file, and I need to extract certain information from specific items. The information I need can be found between a specific set of tags. let's call them... (2 Replies)
I'm trying to get some exclusions into our sendmail regular expression for the K command. The following configuration & regex works:
LOCAL_CONFIG
#
Kcheckaddress regex -a@MATCH
+<@+?\.++?\.(us|info|to|br|bid|cn|ru)
LOCAL_RULESETS
SLocal_check_mail
# check address against various regex... (0 Replies)
Discussion started by: RobbieTheK
0 Replies
LEARN ABOUT PHP
openssl_pkcs7_encrypt
OPENSSL_PKCS7_ENCRYPT(3) 1 OPENSSL_PKCS7_ENCRYPT(3)openssl_pkcs7_encrypt - Encrypt an S/MIME message
SYNOPSIS
bool openssl_pkcs7_encrypt (string $infile, string $outfile, mixed $recipcerts, array $headers, [int $flags], [int $cipherid =
OPENSSL_CIPHER_RC2_40])
DESCRIPTION openssl_pkcs7_encrypt(3) takes the contents of the file named $infile and encrypts them using an RC2 40-bit cipher so that they can only be
read by the intended recipients specified by $recipcerts.
PARAMETERS
o $infile
-
o $outfile
-
o $recipcerts
- Either a lone X.509 certificate, or an array of X.509 certificates.
o $headers
-$headers is an array of headers that will be prepended to the data after it has been encrypted. $headers can be either an asso-
ciative array keyed by header name, or an indexed array, where each element contains a single header line.
o $flags
-$flags can be used to specify options that affect the encoding process - see PKCS7 constants.
o $cipherid
- One of cipher constants.
RETURN VALUES
Returns TRUE on success or FALSE on failure.
EXAMPLES
Example #1
openssl_pkcs7_encrypt(3) example
<?php
// the message you want to encrypt and send to your secret agent
// in the field, known as nighthawk. You have his certificate
// in the file nighthawk.pem
$data = <<<EOD
Nighthawk,
Top secret, for your eyes only!
The enemy is closing in! Meet me at the cafe at 8.30am
to collect your forged passport!
HQ
EOD;
// load key
$key = file_get_contents("nighthawk.pem");
// save message to file
$fp = fopen("msg.txt", "w");
fwrite($fp, $data);
fclose($fp);
// encrypt it
if (openssl_pkcs7_encrypt("msg.txt", "enc.txt", $key,
array("To" => "nighthawk@example.com", // keyed syntax
"From: HQ <hq@example.com>", // indexed syntax
"Subject" => "Eyes only"))) {
// message encrypted - send it!
exec(ini_get("sendmail_path") . " < enc.txt");
}
?>
PHP Documentation Group OPENSSL_PKCS7_ENCRYPT(3)