Run out of memory - acs package / R
I am using the acs package to download unemployment data for all the metro areas in the US.
From the census website first we download the msa codes, load the .csv, subset all metro areas and then use geo.make to make a new geo set object using acs package:
library(acs)
# read msa codes
data = read.csv("C:/dir_here/msa_codes.csv", header = TRUE, sep = ",",stringsAsFactors = FALSE)
# subset data for metro only
data_metro = subset(data, Metropolitan.Micropolitan.Statistical.Area == "Metropolitan Statistical Area")
# Obtain Tracs for all US states (acs package)
all_geo_trac = list()
for (i in 1:nrow(data_metro)) {
all_geo_trac[[i]] = geo.make(msa=data_metro$CBSA.Code[i])
}
Now we have a list of metro areas we want - next is to grab the census data for each metro area. This is the portion where we iterate through each geo.set and download the corresponding unemployment data from the census website. I wrote a for loop for this however I run out of memory around about 100 iterations. When this portion runs, I can watch the memory usage on task manager slowly increase until maximum. The for loop might be copying on each iteration? Heres the code:
# Obtain unemployment data
options( warn = -1 ) # warnings off
#options(warn=0) # warnings on
unemployment_2016_out_df = list()
temp = list()
#gcinfo(TRUE)
for (i in 1:length(all_geo_trac)){
temp[[i]] <- acs.fetch(endyear = 2016, span = 1, geography = all_geo_trac[[i]], table.number = "B23025", col.names = "pretty")
location = temp[[i]]@geography[1]
total = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: Total:")]
total_unemployed = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: In labor force: Civilian labor force: Unemployed")]
#unemployment_2016_out_df[[i]] = data.frame(NAME = location, total_2016 = total, total_unemployed_2016 = total_unemployed)
unemployment_2016_out_df[[i]] = cbind(location,total,total_unemployed)
print(unemployment_2016_out_df[[i]])
cat("iteration",i)
#gc()
#Sys.sleep(10)
}
Can anyone see how I can write this differently? The actual temp[[[i]]
list I am using to store the dfs on iteration 100 doesnt get past the bytes, same with the output list, unemployment_2016_out_df[[i]]
the size doesnt go over 1mb. So those items are not memory intensive which is no surprise there.
My only conclusion is the acs package interfacing with the census api - perhaps the code during the for loop is not releasing the memory on each iteration.
Am I writing the code in a memory efficient way or any other suggestions?
r acs
add a comment |
I am using the acs package to download unemployment data for all the metro areas in the US.
From the census website first we download the msa codes, load the .csv, subset all metro areas and then use geo.make to make a new geo set object using acs package:
library(acs)
# read msa codes
data = read.csv("C:/dir_here/msa_codes.csv", header = TRUE, sep = ",",stringsAsFactors = FALSE)
# subset data for metro only
data_metro = subset(data, Metropolitan.Micropolitan.Statistical.Area == "Metropolitan Statistical Area")
# Obtain Tracs for all US states (acs package)
all_geo_trac = list()
for (i in 1:nrow(data_metro)) {
all_geo_trac[[i]] = geo.make(msa=data_metro$CBSA.Code[i])
}
Now we have a list of metro areas we want - next is to grab the census data for each metro area. This is the portion where we iterate through each geo.set and download the corresponding unemployment data from the census website. I wrote a for loop for this however I run out of memory around about 100 iterations. When this portion runs, I can watch the memory usage on task manager slowly increase until maximum. The for loop might be copying on each iteration? Heres the code:
# Obtain unemployment data
options( warn = -1 ) # warnings off
#options(warn=0) # warnings on
unemployment_2016_out_df = list()
temp = list()
#gcinfo(TRUE)
for (i in 1:length(all_geo_trac)){
temp[[i]] <- acs.fetch(endyear = 2016, span = 1, geography = all_geo_trac[[i]], table.number = "B23025", col.names = "pretty")
location = temp[[i]]@geography[1]
total = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: Total:")]
total_unemployed = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: In labor force: Civilian labor force: Unemployed")]
#unemployment_2016_out_df[[i]] = data.frame(NAME = location, total_2016 = total, total_unemployed_2016 = total_unemployed)
unemployment_2016_out_df[[i]] = cbind(location,total,total_unemployed)
print(unemployment_2016_out_df[[i]])
cat("iteration",i)
#gc()
#Sys.sleep(10)
}
Can anyone see how I can write this differently? The actual temp[[[i]]
list I am using to store the dfs on iteration 100 doesnt get past the bytes, same with the output list, unemployment_2016_out_df[[i]]
the size doesnt go over 1mb. So those items are not memory intensive which is no surprise there.
My only conclusion is the acs package interfacing with the census api - perhaps the code during the for loop is not releasing the memory on each iteration.
Am I writing the code in a memory efficient way or any other suggestions?
r acs
add a comment |
I am using the acs package to download unemployment data for all the metro areas in the US.
From the census website first we download the msa codes, load the .csv, subset all metro areas and then use geo.make to make a new geo set object using acs package:
library(acs)
# read msa codes
data = read.csv("C:/dir_here/msa_codes.csv", header = TRUE, sep = ",",stringsAsFactors = FALSE)
# subset data for metro only
data_metro = subset(data, Metropolitan.Micropolitan.Statistical.Area == "Metropolitan Statistical Area")
# Obtain Tracs for all US states (acs package)
all_geo_trac = list()
for (i in 1:nrow(data_metro)) {
all_geo_trac[[i]] = geo.make(msa=data_metro$CBSA.Code[i])
}
Now we have a list of metro areas we want - next is to grab the census data for each metro area. This is the portion where we iterate through each geo.set and download the corresponding unemployment data from the census website. I wrote a for loop for this however I run out of memory around about 100 iterations. When this portion runs, I can watch the memory usage on task manager slowly increase until maximum. The for loop might be copying on each iteration? Heres the code:
# Obtain unemployment data
options( warn = -1 ) # warnings off
#options(warn=0) # warnings on
unemployment_2016_out_df = list()
temp = list()
#gcinfo(TRUE)
for (i in 1:length(all_geo_trac)){
temp[[i]] <- acs.fetch(endyear = 2016, span = 1, geography = all_geo_trac[[i]], table.number = "B23025", col.names = "pretty")
location = temp[[i]]@geography[1]
total = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: Total:")]
total_unemployed = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: In labor force: Civilian labor force: Unemployed")]
#unemployment_2016_out_df[[i]] = data.frame(NAME = location, total_2016 = total, total_unemployed_2016 = total_unemployed)
unemployment_2016_out_df[[i]] = cbind(location,total,total_unemployed)
print(unemployment_2016_out_df[[i]])
cat("iteration",i)
#gc()
#Sys.sleep(10)
}
Can anyone see how I can write this differently? The actual temp[[[i]]
list I am using to store the dfs on iteration 100 doesnt get past the bytes, same with the output list, unemployment_2016_out_df[[i]]
the size doesnt go over 1mb. So those items are not memory intensive which is no surprise there.
My only conclusion is the acs package interfacing with the census api - perhaps the code during the for loop is not releasing the memory on each iteration.
Am I writing the code in a memory efficient way or any other suggestions?
r acs
I am using the acs package to download unemployment data for all the metro areas in the US.
From the census website first we download the msa codes, load the .csv, subset all metro areas and then use geo.make to make a new geo set object using acs package:
library(acs)
# read msa codes
data = read.csv("C:/dir_here/msa_codes.csv", header = TRUE, sep = ",",stringsAsFactors = FALSE)
# subset data for metro only
data_metro = subset(data, Metropolitan.Micropolitan.Statistical.Area == "Metropolitan Statistical Area")
# Obtain Tracs for all US states (acs package)
all_geo_trac = list()
for (i in 1:nrow(data_metro)) {
all_geo_trac[[i]] = geo.make(msa=data_metro$CBSA.Code[i])
}
Now we have a list of metro areas we want - next is to grab the census data for each metro area. This is the portion where we iterate through each geo.set and download the corresponding unemployment data from the census website. I wrote a for loop for this however I run out of memory around about 100 iterations. When this portion runs, I can watch the memory usage on task manager slowly increase until maximum. The for loop might be copying on each iteration? Heres the code:
# Obtain unemployment data
options( warn = -1 ) # warnings off
#options(warn=0) # warnings on
unemployment_2016_out_df = list()
temp = list()
#gcinfo(TRUE)
for (i in 1:length(all_geo_trac)){
temp[[i]] <- acs.fetch(endyear = 2016, span = 1, geography = all_geo_trac[[i]], table.number = "B23025", col.names = "pretty")
location = temp[[i]]@geography[1]
total = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: Total:")]
total_unemployed = temp[[i]]@estimate[,c("Employment Status for the Population 16 Years and Over: In labor force: Civilian labor force: Unemployed")]
#unemployment_2016_out_df[[i]] = data.frame(NAME = location, total_2016 = total, total_unemployed_2016 = total_unemployed)
unemployment_2016_out_df[[i]] = cbind(location,total,total_unemployed)
print(unemployment_2016_out_df[[i]])
cat("iteration",i)
#gc()
#Sys.sleep(10)
}
Can anyone see how I can write this differently? The actual temp[[[i]]
list I am using to store the dfs on iteration 100 doesnt get past the bytes, same with the output list, unemployment_2016_out_df[[i]]
the size doesnt go over 1mb. So those items are not memory intensive which is no surprise there.
My only conclusion is the acs package interfacing with the census api - perhaps the code during the for loop is not releasing the memory on each iteration.
Am I writing the code in a memory efficient way or any other suggestions?
r acs
r acs
asked Nov 12 '18 at 15:11
Andrew Bannerman
398212
398212
add a comment |
add a comment |
0
active
oldest
votes
Your Answer
StackExchange.ifUsing("editor", function () {
StackExchange.using("externalEditor", function () {
StackExchange.using("snippets", function () {
StackExchange.snippets.init();
});
});
}, "code-snippets");
StackExchange.ready(function() {
var channelOptions = {
tags: "".split(" "),
id: "1"
};
initTagRenderer("".split(" "), "".split(" "), channelOptions);
StackExchange.using("externalEditor", function() {
// Have to fire editor after snippets, if snippets enabled
if (StackExchange.settings.snippets.snippetsEnabled) {
StackExchange.using("snippets", function() {
createEditor();
});
}
else {
createEditor();
}
});
function createEditor() {
StackExchange.prepareEditor({
heartbeatType: 'answer',
autoActivateHeartbeat: false,
convertImagesToLinks: true,
noModals: true,
showLowRepImageUploadWarning: true,
reputationToPostImages: 10,
bindNavPrevention: true,
postfix: "",
imageUploader: {
brandingHtml: "Powered by u003ca class="icon-imgur-white" href="https://imgur.com/"u003eu003c/au003e",
contentPolicyHtml: "User contributions licensed under u003ca href="https://creativecommons.org/licenses/by-sa/3.0/"u003ecc by-sa 3.0 with attribution requiredu003c/au003e u003ca href="https://stackoverflow.com/legal/content-policy"u003e(content policy)u003c/au003e",
allowUrls: true
},
onDemand: true,
discardSelector: ".discard-answer"
,immediatelyShowMarkdownHelp:true
});
}
});
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function () {
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53265009%2frun-out-of-memory-acs-package-r%23new-answer', 'question_page');
}
);
Post as a guest
Required, but never shown
0
active
oldest
votes
0
active
oldest
votes
active
oldest
votes
active
oldest
votes
Thanks for contributing an answer to Stack Overflow!
- Please be sure to answer the question. Provide details and share your research!
But avoid …
- Asking for help, clarification, or responding to other answers.
- Making statements based on opinion; back them up with references or personal experience.
To learn more, see our tips on writing great answers.
Some of your past answers have not been well-received, and you're in danger of being blocked from answering.
Please pay close attention to the following guidance:
- Please be sure to answer the question. Provide details and share your research!
But avoid …
- Asking for help, clarification, or responding to other answers.
- Making statements based on opinion; back them up with references or personal experience.
To learn more, see our tips on writing great answers.
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function () {
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53265009%2frun-out-of-memory-acs-package-r%23new-answer', 'question_page');
}
);
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function () {
StackExchange.helpers.onClickDraftSave('#login-link');
});
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown