I am using Entrez-direct to convert rs-ID to HGNC-symbol, which I need for downstream analysis.

more id

rs3828049
rs10907177
rs9442400
rs6687776
rs11579015
rs6671356
rs12757754
rs2298217
rs9442380
rs1891905

I then use the following code to obtain the HGNC gene symbols for each SNP rs-ID. There are about 500,000 rs id's in "id".

for i in `cat ./id`; do esearch -db snp -query "${i} AND human [orgn]" | esummary | xtract -pattern DocumentSummary -element SNP_ID,NAME |  uniq >> rs_hgnc.txt ; done

I then get the following error message for some of the id's, resulting in a blank HGNC-symbol. The script keeps running in spite of this message, but I want to fix it since I want hgnc-symbols for ALL of my SNPs. Does anyone know how to get around this problem?

The error message is displayed below:

429 Too Many Requests
No do_post output returned from 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=snp&query_key=1&WebEnv=MCID_606af2ce96bf9a5edc2dce36&retstart=0&retmax=3&version=2.0&edirect=7.40&tool=edirect&email=user@mail+'
Result of do_post http request is
$VAR1 = bless( {
                 '_rc' => 429,
                 '_content' => '{"error":"API rate limit exceeded","api-key":"195.215.246.170","count":"4","limit":"3"}
',
                 '_protocol' => 'HTTP/1.1',
                 '_request' => bless( {
                                        '_method' => 'POST',
                                        '_uri' => bless( do{\(my $o = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi')}, 'URI::https' ),
                                        '_headers' => bless( {
                                                               'user-agent' => 'libwww-perl/6.31',
                                                               '::std_case' => {
                                                                                 'if-ssl-cert-subject' => 'If-SSL-Cert-Subject'
                                                                               },
                                                               'content-type' => 'application/x-www-form-urlencoded'
                                                             }, 'HTTP::Headers' ),
                                        '_uri_canonical' => $VAR1->{'_request'}{'_uri'},
                                        '_content' => 'db=snp&query_key=1&WebEnv=MCID_606af2ce96bf9a5edc2dce36&retstart=0&retmax=3&version=2.0&edirect=7.40&tool=edirect&email=user@mail+'
                                      }, 'HTTP::Request' ),
                 '_headers' => bless( {
                                        'x-xss-protection' => '1; mode=block',
                                        'retry-after' => '2',
                                        'x-ratelimit-limit' => '3',
                                        'access-control-expose-headers' => 'X-RateLimit-Limit,X-RateLimit-Remaining,Retry-After',
                                        'client-ssl-cipher' => 'ECDHE-RSA-AES256-GCM-SHA384',
                                        'client-peer' => '130.14.29.110:443',
                                        'x-ua-compatible' => 'IE=Edge',
                                        'client-ssl-cert-subject' => '/C=US/ST=Maryland/L=Bethesda/O=National Library of Medicine/OU=National Center for Biotechnology Information/CN=*.ncbi.nlm.nih.gov',
                                        'connection' => 'close',
                                        'server' => 'Finatra',
                                        'client-ssl-socket-class' => 'IO::Socket::SSL',
                                        'x-ratelimit-remaining' => '0',
                                        'strict-transport-security' => 'max-age=31536000; includeSubDomains; preload',
                                        'vary' => 'Accept-Encoding',
                                        'date' => 'Mon, 05 Apr 2021 11:21:50 GMT',
                                        'content-length' => '88',
                                        'client-response-num' => 1,
                                        'content-type' => 'application/json',
                                        'client-date' => 'Mon, 05 Apr 2021 11:21:51 GMT',
                                        '::std_case' => {
                                                          'client-response-num' => 'Client-Response-Num',
                                                          'client-peer' => 'Client-Peer',
                                                          'x-ua-compatible' => 'X-UA-Compatible',
                                                          'client-date' => 'Client-Date',
                                                          'content-security-policy' => 'Content-Security-Policy',
                                                          'client-ssl-cert-subject' => 'Client-SSL-Cert-Subject',
                                                          'client-ssl-cert-issuer' => 'Client-SSL-Cert-Issuer',
                                                          'x-xss-protection' => 'X-XSS-Protection',
                                                          'client-ssl-socket-class' => 'Client-SSL-Socket-Class',
                                                          'access-control-expose-headers' => 'Access-Control-Expose-Headers',
                                                          'x-ratelimit-remaining' => 'X-RateLimit-Remaining',
                                                          'x-ratelimit-limit' => 'X-RateLimit-Limit',
                                                          'strict-transport-security' => 'Strict-Transport-Security',
                                                          'client-ssl-cipher' => 'Client-SSL-Cipher'
                                                        },
                                        'content-security-policy' => 'upgrade-insecure-requests',
                                        'client-ssl-cert-issuer' => '/C=US/O=DigiCert Inc/OU=www.digicert.com/CN=DigiCert SHA2 High Assurance Server CA'
                                      }, 'HTTP::Headers' ),
                 '_msg' => 'Too Many Requests'
               }, 'HTTP::Response' );