Batch copying TSVs to postgres with copy command
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I wrote this script that uploads the contents of a folder of TSVs to my Postgres database.
It works, but it reads the files line by line, which takes a long time.
Is there a way to modify this so it runs the COPY command instead of an INSERT command?
I left my previous attempt at a COPY in the code below (but commented out). The problem with that code is that it copied the file headers into the rows of my Postgres table.
def main():
# MAKE SURE THIS IS THE RIGHT FILE TYPE
for file in pathlib.Path().rglob('*.tsv'):
print(os.path.abspath(file))
# MAKE SURE THIS IS THE RIGHT TABLE
cur.execute(create_table_agent)
with open(file,'r') as file_in:
reader = csv.reader(file_in, delimiter='t')
next(reader)
for row in reader:
print(row)
cur.execute("INSERT INTO mls_agent_1_line VALUES (%s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s)", row)
# cur.copy_from(file_in, 'mls_appraisal_world', sep='t', null='\N')
conn.commit()
conn.close()
if __name__ == '__main__':
main()
python postgresql psycopg2
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
add a comment |
I wrote this script that uploads the contents of a folder of TSVs to my Postgres database.
It works, but it reads the files line by line, which takes a long time.
Is there a way to modify this so it runs the COPY command instead of an INSERT command?
I left my previous attempt at a COPY in the code below (but commented out). The problem with that code is that it copied the file headers into the rows of my Postgres table.
def main():
# MAKE SURE THIS IS THE RIGHT FILE TYPE
for file in pathlib.Path().rglob('*.tsv'):
print(os.path.abspath(file))
# MAKE SURE THIS IS THE RIGHT TABLE
cur.execute(create_table_agent)
with open(file,'r') as file_in:
reader = csv.reader(file_in, delimiter='t')
next(reader)
for row in reader:
print(row)
cur.execute("INSERT INTO mls_agent_1_line VALUES (%s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s)", row)
# cur.copy_from(file_in, 'mls_appraisal_world', sep='t', null='\N')
conn.commit()
conn.close()
if __name__ == '__main__':
main()
python postgresql psycopg2
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
add a comment |
I wrote this script that uploads the contents of a folder of TSVs to my Postgres database.
It works, but it reads the files line by line, which takes a long time.
Is there a way to modify this so it runs the COPY command instead of an INSERT command?
I left my previous attempt at a COPY in the code below (but commented out). The problem with that code is that it copied the file headers into the rows of my Postgres table.
def main():
# MAKE SURE THIS IS THE RIGHT FILE TYPE
for file in pathlib.Path().rglob('*.tsv'):
print(os.path.abspath(file))
# MAKE SURE THIS IS THE RIGHT TABLE
cur.execute(create_table_agent)
with open(file,'r') as file_in:
reader = csv.reader(file_in, delimiter='t')
next(reader)
for row in reader:
print(row)
cur.execute("INSERT INTO mls_agent_1_line VALUES (%s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s)", row)
# cur.copy_from(file_in, 'mls_appraisal_world', sep='t', null='\N')
conn.commit()
conn.close()
if __name__ == '__main__':
main()
python postgresql psycopg2
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
I wrote this script that uploads the contents of a folder of TSVs to my Postgres database.
It works, but it reads the files line by line, which takes a long time.
Is there a way to modify this so it runs the COPY command instead of an INSERT command?
I left my previous attempt at a COPY in the code below (but commented out). The problem with that code is that it copied the file headers into the rows of my Postgres table.
def main():
# MAKE SURE THIS IS THE RIGHT FILE TYPE
for file in pathlib.Path().rglob('*.tsv'):
print(os.path.abspath(file))
# MAKE SURE THIS IS THE RIGHT TABLE
cur.execute(create_table_agent)
with open(file,'r') as file_in:
reader = csv.reader(file_in, delimiter='t')
next(reader)
for row in reader:
print(row)
cur.execute("INSERT INTO mls_agent_1_line VALUES (%s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s, %s)", row)
# cur.copy_from(file_in, 'mls_appraisal_world', sep='t', null='\N')
conn.commit()
conn.close()
if __name__ == '__main__':
main()
python postgresql psycopg2
python postgresql psycopg2
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
asked Nov 23 '18 at 23:25
reallymemorablereallymemorable
174119
174119
add a comment |
add a comment |
1 Answer
1
active
oldest
votes
The Postgres COPY command can properly skip headers only in CSV format. Per the documentation:
HEADER
Specifies that the file contains a header line with the names of each column in the file. On output, the first line contains the column names from the table, and on input, the first line is ignored. This option is allowed only when using CSV format.
If your files can be properly imported by the COPY command with format csv option, use the function copy_expert(sql, file, size=8192):
with open(file, 'r') as file_in:
cur.copy_expert("copy table_name from stdin with csv header delimiter E't'", file_in)
answered Nov 24 '18 at 0:55
klinklin
61k65991
I have used the csv header command in single line copy commands before, like this:copy table_name from '/path/to/file.txt' with csv header delimiter E't';
– reallymemorable
Nov 24 '18 at 3:22
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start withcopy?
– reallymemorable
Nov 24 '18 at 15:10
1
COPYis a Postgres SQL command,COPYis a command specific for psql that implements the first and works only in psql.
– klin
Nov 24 '18 at 15:24
add a comment |
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1 Answer
1
active
oldest
votes
1 Answer
1
active
oldest
votes
active
oldest
votes
active
oldest
votes
The Postgres COPY command can properly skip headers only in CSV format. Per the documentation:
HEADER
Specifies that the file contains a header line with the names of each column in the file. On output, the first line contains the column names from the table, and on input, the first line is ignored. This option is allowed only when using CSV format.
If your files can be properly imported by the COPY command with format csv option, use the function copy_expert(sql, file, size=8192):
with open(file, 'r') as file_in:
cur.copy_expert("copy table_name from stdin with csv header delimiter E't'", file_in)
answered Nov 24 '18 at 0:55
klinklin
61k65991
I have used the csv header command in single line copy commands before, like this:copy table_name from '/path/to/file.txt' with csv header delimiter E't';
– reallymemorable
Nov 24 '18 at 3:22
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start withcopy?
– reallymemorable
Nov 24 '18 at 15:10
1
COPYis a Postgres SQL command,COPYis a command specific for psql that implements the first and works only in psql.
– klin
Nov 24 '18 at 15:24
add a comment |
The Postgres COPY command can properly skip headers only in CSV format. Per the documentation:
HEADER
Specifies that the file contains a header line with the names of each column in the file. On output, the first line contains the column names from the table, and on input, the first line is ignored. This option is allowed only when using CSV format.
If your files can be properly imported by the COPY command with format csv option, use the function copy_expert(sql, file, size=8192):
with open(file, 'r') as file_in:
cur.copy_expert("copy table_name from stdin with csv header delimiter E't'", file_in)
answered Nov 24 '18 at 0:55
klinklin
61k65991
I have used the csv header command in single line copy commands before, like this:copy table_name from '/path/to/file.txt' with csv header delimiter E't';
– reallymemorable
Nov 24 '18 at 3:22
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start withcopy?
– reallymemorable
Nov 24 '18 at 15:10
1
COPYis a Postgres SQL command,COPYis a command specific for psql that implements the first and works only in psql.
– klin
Nov 24 '18 at 15:24
add a comment |
The Postgres COPY command can properly skip headers only in CSV format. Per the documentation:
HEADER
Specifies that the file contains a header line with the names of each column in the file. On output, the first line contains the column names from the table, and on input, the first line is ignored. This option is allowed only when using CSV format.
If your files can be properly imported by the COPY command with format csv option, use the function copy_expert(sql, file, size=8192):
with open(file, 'r') as file_in:
cur.copy_expert("copy table_name from stdin with csv header delimiter E't'", file_in)
answered Nov 24 '18 at 0:55
klinklin
61k65991
The Postgres COPY command can properly skip headers only in CSV format. Per the documentation:
HEADER
Specifies that the file contains a header line with the names of each column in the file. On output, the first line contains the column names from the table, and on input, the first line is ignored. This option is allowed only when using CSV format.
If your files can be properly imported by the COPY command with format csv option, use the function copy_expert(sql, file, size=8192):
with open(file, 'r') as file_in:
cur.copy_expert("copy table_name from stdin with csv header delimiter E't'", file_in)
answered Nov 24 '18 at 0:55
klinklin
61k65991
edited Nov 24 '18 at 3:51
answered Nov 24 '18 at 0:55
klinklin
61k65991
answered Nov 24 '18 at 0:55
klinklin
61k65991
answered Nov 24 '18 at 0:55
klinklin
61k65991
61k65991
I have used the csv header command in single line copy commands before, like this:copy table_name from '/path/to/file.txt' with csv header delimiter E't';
– reallymemorable
Nov 24 '18 at 3:22
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start withcopy?
– reallymemorable
Nov 24 '18 at 15:10
1
COPYis a Postgres SQL command,COPYis a command specific for psql that implements the first and works only in psql.
– klin
Nov 24 '18 at 15:24
add a comment |
I have used the csv header command in single line copy commands before, like this:copy table_name from '/path/to/file.txt' with csv header delimiter E't';
– reallymemorable
Nov 24 '18 at 3:22
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start withcopy?
– reallymemorable
Nov 24 '18 at 15:10
1
COPYis a Postgres SQL command,COPYis a command specific for psql that implements the first and works only in psql.
– klin
Nov 24 '18 at 15:24
I have used the csv header command in single line copy commands before, like this:
copy table_name from '/path/to/file.txt' with csv header delimiter E't';– reallymemorable
Nov 24 '18 at 3:22
I have used the csv header command in single line copy commands before, like this:
copy table_name from '/path/to/file.txt' with csv header delimiter E't';– reallymemorable
Nov 24 '18 at 3:22
1
1
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
Ok, see the updated answer.
– klin
Nov 24 '18 at 3:52
That worked -- but out of curiosity -- why didn't that command start with
copy?– reallymemorable
Nov 24 '18 at 15:10
That worked -- but out of curiosity -- why didn't that command start with
copy?– reallymemorable
Nov 24 '18 at 15:10
1
1
COPY is a Postgres SQL command, COPY is a command specific for psql that implements the first and works only in psql.– klin
Nov 24 '18 at 15:24
COPY is a Postgres SQL command, COPY is a command specific for psql that implements the first and works only in psql.– klin
Nov 24 '18 at 15:24
add a comment |
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