Normally I try to avoid the use of macros, so I actually don't know how to use them beyond the very most basic ones, but I'm trying to do some meta-manipulation so I assume macros are needed.
I have an enum listing various log entries and their respective id, e.g.
enum LogID
{
LOG_ID_ITEM1=0,
LOG_ID_ITEM2,
LOG_ID_ITEM3=10,
...
}
which is used within my program when writing data to the log file. Note that they will not, in general, be in any order.
I do most of my log file post-processing in Matlab so I'd like to write the same variable names and values to a file for Matlab to load in. e.g., a file looking like
LOG_ID_ITEM1=0;
LOG_ID_ITEM2=1;
LOG_ID_ITEM3=10;
...
I have no idea how to go about doing this, but it seems like it shouldn't be too complicated. If it helps, I am using c++11.
edit:
For clarification, I'm not looking for the macro itself to write the file. I want a way to store the enum element names and values as strings and ints somehow so I can then use a regular c++ function to write everything to file. I'm thinking the macro might then be used to build up the strings and values into vectors? Does that work? If so, how?
I agree with Adam Burry that a separate script is likely best for this. Not sure which languages you're familiar with, but here's a quick Python script that'll do the job:
#!/usr/bin/python
'''Makes a .m file from an enum in a C++ source file.'''
from __future__ import print_function
import sys
import re
def parse_cmd_line():
'''Gets a filename from the first command line argument.'''
if len(sys.argv) != 2:
sys.stderr.write('Usage: enummaker [cppfilename]\n')
sys.exit(1)
return sys.argv[1]
def make_m_file(cpp_file, m_file):
'''Makes an .m file from enumerations in a .cpp file.'''
in_enum = False
enum_val = 0
lines = cpp_file.readlines()
for line in lines:
if in_enum:
# Currently processing an enumeration
if '}' in line:
# Encountered a closing brace, so stop
# processing and reset value counter
in_enum = False
enum_val = 0
else:
# No closing brace, so process line
if '=' in line:
# If a value is supplied, use it
ev_string = re.match(r'[^=]*=(\d+)', line)
enum_val = int(ev_string.group(1))
# Write output line to file
e_out = re.match(r'[^=\n,]+', line)
m_file.write(e_out.group(0).strip() + '=' +
str(enum_val) + ';\n')
enum_val += 1
else:
# Not currently processing an enum,
# so check for an enum definition
enumstart = re.match(r'enum \w+ {', line)
if enumstart:
in_enum = True
def main():
'''Main function.'''
# Get file names
cpp_name = parse_cmd_line()
m_name = cpp_name.replace('cpp', 'm')
print('Converting ' + cpp_name + ' to ' + m_name + '...')
# Open the files
try:
cpp_file = open(cpp_name, 'r')
except IOError:
print("Couldn't open " + cpp_name + ' for reading.')
sys.exit(1)
try:
m_file = open(m_name, 'w')
except IOError:
print("Couldn't open " + m_name + ' for writing.')
sys.exit(1)
# Translate the cpp file
make_m_file(cpp_file, m_file)
# Finish
print("Done.")
cpp_file.close()
m_file.close()
if __name__ == '__main__':
main()
Running ./enummaker.py testenum.cpp on the following file of that name:
/* Random code here */
enum LogID {
LOG_ID_ITEM1=0,
LOG_ID_ITEM2,
LOG_ID_ITEM3=10,
LOG_ID_ITEM4
};
/* More random code here */
enum Stuff {
STUFF_ONE,
STUFF_TWO,
STUFF_THREE=99,
STUFF_FOUR,
STUFF_FIVE
};
/* Yet more random code here */
produces a file testenum.m containing the following:
LOG_ID_ITEM1=0;
LOG_ID_ITEM2=1;
LOG_ID_ITEM3=10;
LOG_ID_ITEM4=11;
STUFF_ONE=0;
STUFF_TWO=1;
STUFF_THREE=99;
STUFF_FOUR=100;
STUFF_FIVE=101;
This script assumes that the closing brace of an enum block is always on a separate line, that the first identifier is defined on the line following the opening brace, that there are no blank lines between the braces, that enum appears at the start of a line, and that there is no space following the = and the number. Easy enough to modify the script to overcome these limitations. You could have your makefile run this automatically.
Have you considered "going the other way"? It usually makes more sense to maintain your data definitions in a (text) file, then as part of your build process you can generate a C++ header and include it. Python and mako is a good tool for doing this.
Related
I am trying to run the script below. The intention of the script is to open different fasta files one after the other, and extract the geneID. The script works well if I don't use the glob.glob function. I get this message TypeError: coercing to Unicode: need string or buffer, list found
files='/home/pathtofiles/files'
#print files
#sys.exit()
for file in files:
fastas=sorted(glob.glob(files + '/*.fasta'))
#print fastas[0]
output_handle=(open(fastas, 'r+'))
genes_files=list(SeqIO.parse(output_handle, 'fasta'))
geneID=genes_files[0].id
print geneID
I am running of ideas on how to direct the script to open when file after another to give me the require information.
I see what you are trying to do, but let me first explain why your current approach is not working.
You have a path to a directory with fasta files and you want to loop over the files in that directory. But observe what happens if we do:
>>> files='/home/pathtofiles/files'
>>> for file in files:
>>> print file
/
h
o
m
e
/
p
a
t
h
t
o
f
i
l
e
s
/
f
i
l
e
s
Not the list of filenames you expected! files is a string and when you apply a for loop on a string you simply iterate over the characters in that string.
Also, as doctorlove correctly observed, in your code fastas is a list and open expects a path to a file as first argument. That's why you get the TypeError: ... need string, ... list found.
As an aside (and this is more a problem on Windows then on Linux or Mac), but it is good practice to always use raw string literals (prefix the string with an r) when working with pathnames to prevent the unwanted expansion of backslash escaped sequences like \n and \t to newline and tab.
>>> path = 'C:\Users\norah\temp'
>>> print path
C:\Users
orah emp
>>> path = r'C:\Users\norah\temp'
>>> print path
C:\Users\norah\temp
Another good practice is to use os.path.join() when combining pathnames and filenames. This prevents subtle bugs where your script works on your machine bug gives an error on the machine of your colleague who has a different operating system.
I would also recommend using the with statement when opening files. This assures that the filehandle gets properly closed when you're done with it.
As a final remark, file is a built-in function in Python and it is bad practice to use a variable with the same name as a built-in function because that can cause bugs or confusion later on.
Combing all of the above, I would rewrite your code like this:
import os
import glob
from Bio import SeqIO
path = r'/home/pathtofiles/files'
pattern = os.path.join(path, '*.fasta')
for fasta_path in sorted(glob.glob(pattern)):
print fasta_path
with open(fasta_path, 'r+') as output_handle:
genes_records = SeqIO.parse(output_handle, 'fasta')
for gene_record in genes_records:
print gene_record.id
This is way I solved the problem, and this script works.
import os,sys
import glob
from Bio import SeqIO
def extracting_information_gene_id():
#to extract geneID information and add the reference gene to each different file
files=sorted(glob.glob('/home/path_to_files/files/*.fasta'))
#print file
#sys.exit()
for file in files:
#print file
output_handle=open(file, 'r+')
ref_genes=list(SeqIO.parse(output_handle, 'fasta'))
geneID=ref_genes[0].id
#print geneID
#sys.exit()
#to extract the geneID as a reference record from the genes_files
query_genes=(SeqIO.index('/home/path_to_file/file.fa', 'fasta'))
#print query_genes[geneID].format('fasta') #check point
#sys.exit()
ref_gene=query_genes[geneID].format('fasta')
#print ref_gene #check point
#sys.exit()
output_handle.write(str(ref_gene))
output_handle.close()
query_genes.close()
extracting_information_gene_id()
print 'Reference gene sequence have been added'
I want to download multiple specific links(images´ urls) into a txt file(or any file where all links can be listed underneath each others).
I get them but the code wrtite each link on the top of the other one and at the end it stays only a link :(. Also I want not repeated urls
def dlink(self, image_url):
r = self.session.get(image_url, stream=True)
with open('Output.txt','w') as f:
f.write(image_url + '\n')
The issue is most simply that opening a file with mode 'w' truncates any existing file. You should change 'w' to 'a' instead. This will open an existing file for writing, but append instead of truncating.
More fundamentally, the problem may be that you are opening the file over and over in a loop. This is very inefficient. The only time the approach you use could be really useful is if your program is approaching the OS-imposed limit on number of open files. If this is not the case, I would recommended putting the loop inside the with block, keeping the mode as 'w' since you open the file just once now, and passing the open file to your dlink function.
Edit
Huge mistake of my part, as it is a method, and you will call it several times, if you open it in write mode ('w') or similar, it will Overwrites the existing file if the file exists.
So, if you use the 'a' way, you can see that:
Opens a file for appending. The file pointer is at the end of the file
if the file exists. That is, the file is in the append mode. If the
file does not exist, it creates a new file for writing.
The other problem radics in image_url is a list, so you need to write it line by line:
def dlink(self, image_url):
r = self.session.get(image_url, stream=True)
with open('Output.txt','a') as f:
for url in list(set(image_url)):
f.write(image_url + '\n')
another way to do it:
your_file = open('Output.txt', 'a')
r = self.session.get(image_url, stream=True)
for url in list(set(image_url)):
your_file.write("%s\n" % url)
your_file.close() #dont forget close it :)
the file open mode is wrong,'w' mode make this file was overwritten every time you open it,not appended to it. replace it to 'a' mode.
you can see this https://stackoverflow.com/a/23566951/8178794 for more detail
Open a file with option w overwrite the file if existring, use the mode a to append data to an existing file.
Try :
import requests
from os.path import splitext
# use mode='a' to append result without erasing filename
def dlink(url, filename, mode='w'):
r = requests.get(url)
if r.status_code != 200:
return
# here the link is valid
with open(filename, mode) as desc:
desc.write(url)
def dimg(img_url, img_name):
r = requests.get(img_url, stream=True)
if r.status_code != 200:
return
_, ext = splitext(img_url)
with open(img_name + ext, 'wb') as desc:
for chunk in r:
desc.write(chunk)
dlink('https://image.flaticon.com/teams/slug/freepik.jpg', 'links.txt')
dlink('https://image.flaticon.com/teams/slug/freepik.jpg', 'links.txt', 'a')
dimg('https://image.flaticon.com/teams/slug/freepik.jpg', 'freepik')
import sys, hashlib
import os
inputFile = 'C:\Users\User\Desktop\hashes.txt'
sourceDir = 'C:\Users\User\Desktop\Test Directory'
hashMatch = False
for root, dirs, files in os.walk(sourceDir):
for filename in files:
sourceDirHashes = hashlib.md5(filename)
for digest in inputFile:
if sourceDirHashes.hexdigest() == digest:
hashMatch = True
break
if hashMatch:
print str(filename)
else:
print 'hash not found'
Contents of inputFile =
2899ebdb5f7a90a216e97b3187851fc1
54c177418615a90a6424cb945f7a6aec
dd18bf3a8e0a2a3e53e2661c7fb53534
Contents of sourceDir files =
test
test 1
test 2
I almost have the code working, I'm just tripping up somewhere. My current code that I have posted always returns the else statement, that the hash hasn't been found, even although they do as I have verified this. I have provided the content of my sourceDir so that someone case try this, the file names are test, test 1 and test 2, the same content is in the files.
I must add however, I am not looking for the script to print the actual file content, but rather the name of the file.
Could anyone suggest to where I am going wrong and why it is saying the condition is false?
You need to open the inputFile using open(inputFile, 'rt') then you can read the hashes. Also when you do read the hashes make sure you strip them first to get rid of new line characters \n at the end of the lines
I have an output file from a code which its name will ends to "_x.txt" and I want to connect two codes which second code will use this file as an input and will add more data into it. Finally, it will ends into "blabla_x_f.txt"
I am trying to work it out as below, but seems it is not correct and I could not solve it. Please help:
inf = str(raw_input(*+"_x.txt"))
with open(inf+'_x.txt') as fin, open(inf+'_x_f.txt','w') as fout:
....(other operations)
The main problem is that the "blabla" part of the file could change to any thing every time and will be random strings, so the code needs to be flexible and just search for whatever ends with "_x.txt".
Have a look at Python's glob module:
import glob
files = glob.glob('*_x.txt')
gives you a list of all files ending in _x.txt. Continue with
for path in files:
newpath = path[:-4] + '_f.txt'
with open(path) as in:
with open(newpath, 'w') as out:
# do something
I m trying to read two files and replace content of one file with content of other file in files present in folder which also has sub directories.
But its tell sub process not defined.
i'm new to python and shell script can anybody help me with this please?
import os
import sys
import os.path
f = open ( "file1.txt",'r')
g = open ( "file2.txt",'r')
text1=f.readlines()
text2=g.readlines()
i = 0;
for line in text1:
l = line.replace("\r\n", "")
t = text2[i].replace("\r\n", "")
args = "find . -name *.tml"
Path = subprocess.Popen( args , shell=True )
os.system(" sed -r -i 's/" + l + "/" + t + "/g' " + Path)
i = i + 1;
To specifically address your actual error, you need to import the subprocess module as you are making use of it (oddly) in your code:
import subprocess
After that, you will find more problems. I will try and keep it as simple as possible with my suggestions. Code first, then I will break it down. Keep in mind, there are more robust ways to accomplish this task. But I am doing my best to keep in mind your experience level and making it make your current approach as closely as possible.
import subprocess
import sys
# 1
results = subprocess.Popen("find . -name '*.tml'",
shell=True, stdout=subprocess.PIPE)
if results.wait() != 0:
print "error trying to find tml files"
sys.exit(1)
# 2
tml_files = []
for tml in results.stdout:
tml_files.append(tml.strip())
if not tml_files:
print "no tml files found"
sys.exit(0)
tml_string = " ".join(tml_files)
# 3
with open ("file1.txt") as f, open("file2.txt") as g:
while True:
# 4
f_line = f.readline()
if not f_line:
break
g_line = g.readline()
if not g_line:
break
f_line = f_line.strip()
g_line = g_line.strip()
if not f_line or not g_line:
continue
# 5
cmd = "sed -i -e 's/%s/%s/g' %s" % \
(f_line.strip(), g_line.strip(), tml_string)
ret = subprocess.Popen(cmd, shell=True).wait()
if ret != 0:
print "error doing string replacement"
sys.exit(1)
You do not need to read in your entire files at once. If they are large this could be a lot of memory. You can consume a line at a time, and you can also make use of what is called "context managers" when you open the files. This will ensure they close properly no matter what happens:
We start with a subprocess command that is run only once to find all your .tml files. Your version had the same command being run multiple times. If the search path is the same, then we only need it once. This checks the exit code of the command and quits if it failed.
We loop over stdout on the subprocess command, and add the stripped lines to a list. This is a more robust way of your replace("\r\n"). It removes whitespace. A "list comprehension" would be better suited here (down the line). If we didn't find any tml files, then we have no work to do, so we exit. Otherwise, we join them together in a space-separated string to be suitable for our command later.
This is called "context managers". You can open the file in a way that no matter what they will be closed properly. The file is open for the length of the context within that code block. We are going to loop forever, and break when appropriate.
We pull a line, one at a time, from each file. If either line is blank, we reached the end of the file and cannot do any more work, so we break out. We then strip the newlines, and if either string is empty (blank line) we still can't do any work, but we just continue to the next available line.
A modified version of your sed command. We construct the command string on each loop for the source and replacement strings, and tack on the tml file string. Bear in mind this is a very naive approach to the replacement. It really expects your replacement strings to be safe characters and not break the s///g sed format. But we run that with another subprocess command. The wait() simply waits for the return code, and we check it for an error. This approach replaces your os.system() version.
Hope this helps. Eventually you can improve this to do more checking and safe operations.