Entering edit mode
6.0 years ago
saadleeshehreen
▴
140
Hi I am trying to get assembly number ( for example GCF_001166025.1 is for NZ_CQEB01000017.1) for 100 genomes with the following command. The command previously work for me but today giving some error. Anyone know what happen?
elink -db nuccore -id NZ_CQEB01000017.1 -target assembly|esummary|xtract -pattern DocumentSummary -element AssemblyAccession
501 Protocol scheme 'https' is not supported (LWP::Protocol::https not installed)
No do_post output returned from 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi? dbfrom=nuccore&db=assembly&cmd=neighbor_history&linkname=nuccore_assembly&id=NZ_CQEB01000017.1&edirect_os=linux&edirect=10.2&tool=edirect
Result of do_post http request is
$VAR1 = bless( {
'_request' => bless( {
'_content' => 'dbfrom=nuccore&db=assembly&cmd=neighbor_history&linkname=nuccore_assembly&id=NZ_CQEB01000017.1&edirect_os=linux&edirect=10.2&tool=edirect&email=saadleeshehreen@biochemcompute.otago.ac.nz',
'_uri' => bless( do{\(my $o = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi')}, 'URI::https' ),
'_headers' => bless( {
'user-agent' => 'libwww-perl/6.15',
'content-type' => 'application/x-www-form-urlencoded'
}, 'HTTP::Headers' ),
'_method' => 'POST'
}, 'HTTP::Request' ),
'_msg' => 'Protocol scheme \'https\' is not supported (LWP::Protocol::https not installed)',
'_rc' => 501,
'_content' => 'LWP will support https URLs if the LWP::Protocol::https module
is installed.
',
'_headers' => bless( {
'::std_case' => {
'client-warning' => 'Client-Warning',
'client-date' => 'Client-Date'
},
'client-warning' => 'Internal response',
'client-date' => 'Thu, 28 Feb 2019 06:34:16 GMT',
'content-type' => 'text/plain'
}, 'HTTP::Headers' )
}, 'HTTP::Response' );
WebEnv value not found in link output - WebEnv1
Db value not found in summary input