URL: h t t p : / / e x t - h t t p - e u t i l s . l i n k e r d . n c b i . n
⋮
1388-byte body
""")
Stacktrace:
[1] request(method::String, URL::String, headers::Vector{Pair{String, String}}; params::@Kwargs{body::String, retry_non_idempotent::Bool})
@ BioServices ~/.julia/packages/BioServices/EkekK/src/common.jl:36
[2] request
@ ~/.julia/packages/BioServices/EkekK/src/common.jl:4 [inlined]
[3] esummary(ctx::Dict{Symbol, Any}; params::@Kwargs{db::String, id::String})
@ BioServices.EUtils ~/.julia/packages/BioServices/EkekK/src/eutils.jl:113
[4] esummary
@ ~/.julia/packages/BioServices/EkekK/src/eutils.jl:110 [inlined]
[5] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:4
[6] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[7] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:37 [inlined]
[8] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[9] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:37 [inlined]
[10] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[11] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/runtests.jl:25
[12] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[13] top-level scope
@ none:6
[14] eval(m::Module, e::Any)
@ Core ./boot.jl:489
[15] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:286
[16] _start()
@ Base ./client.jl:553
efetch: Error During Test at /home/pkgeval/.julia/packages/BioServices/EkekK/test/eutils.jl:67
Got exception outside of a @test
HTTP.Exceptions.StatusError(500, "POST", "/entrez/eutils/efetch.fcgi", HTTP.Messages.Response:
"""
HTTP/1.1 500 Internal Server Error
Date: Sun, 27 Jul 2025 15:37:46 GMT
Server: Finatra
Strict-Transport-Security: max-age=31536000; includeSubDomains; preload
Content-Security-Policy: upgrade-insecure-requests
Referrer-Policy: origin-when-cross-origin
Content-Type: text/html; charset=ISO-8859-1
content-encoding: gzip
X-RateLimit-Limit: 3
X-RateLimit-Remaining: 2
Access-Control-Expose-Headers: X-RateLimit-Limit,X-RateLimit-Remaining
X-UA-Compatible: IE=Edge
X-XSS-Protection: 1; mode=block
Connection: close
Transfer-Encoding: chunked
Your request could not be processed due to a problem on
our Web server. This could be a transient problem, please
try the query again. If it doesn't clear up within a
reasonable period of time, e-mail a short description of your
query and the diagnostic information shown below to:
Thank you for your assistance. We will try to fix the
problem as soon as possible.
URL: h t t p : / / e x t - h t t p - e u t i l s . l i n k e r d . n c b i . n
⋮
1385-byte body
""")
Stacktrace:
[1] request(method::String, URL::String, headers::Vector{Pair{String, String}}; params::@Kwargs{body::String, retry_non_idempotent::Bool})
@ BioServices ~/.julia/packages/BioServices/EkekK/src/common.jl:36
[2] request
@ ~/.julia/packages/BioServices/EkekK/src/common.jl:4 [inlined]
[3] efetch(ctx::Dict{Symbol, Any}; params::@Kwargs{db::String, id::String, retmode::String, idtype::String})
@ BioServices.EUtils ~/.julia/packages/BioServices/EkekK/src/eutils.jl:127
[4] efetch
@ ~/.julia/packages/BioServices/EkekK/src/eutils.jl:124 [inlined]
[5] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:4
[6] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[7] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:68 [inlined]
[8] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[9] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:68 [inlined]
[10] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[11] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/runtests.jl:25
[12] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[13] top-level scope
@ none:6
[14] eval(m::Module, e::Any)
@ Core ./boot.jl:489
[15] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:286
[16] _start()
@ Base ./client.jl:553
elink: Error During Test at /home/pkgeval/.julia/packages/BioServices/EkekK/test/eutils.jl:105
Got exception outside of a @test
HTTP.Exceptions.StatusError(500, "POST", "/entrez/eutils/elink.fcgi", HTTP.Messages.Response:
"""
HTTP/1.1 500 Internal Server Error
Date: Sun, 27 Jul 2025 15:37:55 GMT
Server: Finatra
Strict-Transport-Security: max-age=31536000; includeSubDomains; preload
Content-Security-Policy: upgrade-insecure-requests
Referrer-Policy: origin-when-cross-origin
Content-Type: text/html; charset=ISO-8859-1
content-encoding: gzip
X-RateLimit-Limit: 3
X-RateLimit-Remaining: 2
Access-Control-Expose-Headers: X-RateLimit-Limit,X-RateLimit-Remaining
X-UA-Compatible: IE=Edge
X-XSS-Protection: 1; mode=block
Connection: close
Transfer-Encoding: chunked
NCBI/eutils202 - WWW Error 500 Diagnostic
Server Error
Your request could not be processed due to a problem on
our Web server. This could be a transient problem, please
try the query again. If it doesn't clear up within a
reasonable period of time, e-mail a short description of your
query and the diagnostic information shown below to:
pubmed@nlm.nih.gov - for problems with PubMed
webadmin@ncbi.nlm.nih.gov - for problems with other services
Thank you for your assistance. We will try to fix the
problem as soon as possible.
Diagnostic Information:
Error: 500
URL: h t t p : / / e x t - h t t p - e u t i l s . l i n k e r d . n c b i . n
⋮
1382-byte body
""")
Stacktrace:
[1] request(method::String, URL::String, headers::Vector{Pair{String, String}}; params::@Kwargs{body::String, retry_non_idempotent::Bool})
@ BioServices ~/.julia/packages/BioServices/EkekK/src/common.jl:36
[2] request
@ ~/.julia/packages/BioServices/EkekK/src/common.jl:4 [inlined]
[3] elink(ctx::Dict{Symbol, Any}; params::@Kwargs{dbfrom::String, db::String, id::String})
@ BioServices.EUtils ~/.julia/packages/BioServices/EkekK/src/eutils.jl:141
[4] elink
@ ~/.julia/packages/BioServices/EkekK/src/eutils.jl:138 [inlined]
[5] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:4
[6] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[7] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:106 [inlined]
[8] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[9] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:106 [inlined]
[10] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[11] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/runtests.jl:25
[12] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[13] top-level scope
@ none:6
[14] eval(m::Module, e::Any)
@ Core ./boot.jl:489
[15] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:286
[16] _start()
@ Base ./client.jl:553
egquery: Error During Test at /home/pkgeval/.julia/packages/BioServices/EkekK/test/eutils.jl:112
Got exception outside of a @test
HTTP.ConnectError for url = `https://ext-http-eutils.linkerd.ncbi.nlm.nih.gov/gquery?term=%28Asthma%5BMeSH%20Major%20Topic%5D%29%20AND%0A%28%28%222018%2F01%2F01%22%5BDate%20-%20Publication%5D%20%3A%20%0A%223000%22%5BDate%20-%20Publication%5D%29%29&retmode=xml`: DNSError: ext-http-eutils.linkerd.ncbi.nlm.nih.gov, unknown node or service (EAI_NONAME)
Stacktrace:
[1] getalladdrinfo(host::String)
@ Sockets /opt/julia/share/julia/stdlib/v1.13/Sockets/src/addrinfo.jl:113
[2] getalladdrinfo
@ /opt/julia/share/julia/stdlib/v1.13/Sockets/src/addrinfo.jl:122 [inlined]
[3] getconnection(::Type{Sockets.TCPSocket}, host::SubString{String}, port::String; keepalive::Bool, readtimeout::Int64, kw::@Kwargs{require_ssl_verification::Bool, iofunction::Nothing, decompress::Nothing, verbose::Int64, status_exception::Bool})
@ HTTP.Connections ~/.julia/packages/HTTP/JcAHX/src/Connections.jl:520
[4] getconnection
@ ~/.julia/packages/HTTP/JcAHX/src/Connections.jl:508 [inlined]
[5] getconnection(::Type{OpenSSL.SSLStream}, host::SubString{String}, port::SubString{String}; kw::@Kwargs{require_ssl_verification::Bool, keepalive::Bool, readtimeout::Int64, iofunction::Nothing, decompress::Nothing, verbose::Int64, status_exception::Bool})
@ HTTP.Connections ~/.julia/packages/HTTP/JcAHX/src/Connections.jl:585
[6] getconnection
@ ~/.julia/packages/HTTP/JcAHX/src/Connections.jl:578 [inlined]
[7] #13
@ ~/.julia/packages/HTTP/JcAHX/src/Connections.jl:467 [inlined]
[8] macro expansion
@ ~/.julia/packages/ConcurrentUtilities/ofY4K/src/try_with_timeout.jl:92 [inlined]
[9] (::ConcurrentUtilities.var"#try_with_timeout##2#try_with_timeout##3"{Any, Channel{Any}, HTTP.Connections.var"#13#14"{OpenSSL.SSLStream, Bool, Bool, @Kwargs{readtimeout::Int64, iofunction::Nothing, decompress::Nothing, verbose::Int64, status_exception::Bool}, SubString{String}, SubString{String}}, Timer})()
@ ConcurrentUtilities ~/.julia/packages/ConcurrentUtilities/ofY4K/src/ConcurrentUtilities.jl:10
Stacktrace:
[1] request(method::String, URL::String, headers::Vector{Pair{String, String}}; params::@Kwargs{query::Dict{Symbol, Any}})
@ BioServices ~/.julia/packages/BioServices/EkekK/src/common.jl:36
[2] request (repeats 2 times)
@ ~/.julia/packages/BioServices/EkekK/src/common.jl:4 [inlined]
[3] #egquery#7
@ ~/.julia/packages/BioServices/EkekK/src/eutils.jl:153 [inlined]
[4] egquery
@ ~/.julia/packages/BioServices/EkekK/src/eutils.jl:151 [inlined]
[5] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:4
[6] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[7] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:113 [inlined]
[8] macro expansion
@ /opt/julia/share/julia/stdlib/v1.13/Test/src/Test.jl:1859 [inlined]
[9] macro expansion
@ ~/.julia/packages/BioServices/EkekK/test/eutils.jl:113 [inlined]
[10] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[11] top-level scope
@ ~/.julia/packages/BioServices/EkekK/test/runtests.jl:25
[12] include(mapexpr::Function, mod::Module, _path::String)
@ Base ./Base.jl:312
[13] top-level scope
@ none:6
[14] eval(m::Module, e::Any)
@ Core ./boot.jl:489
[15] exec_options(opts::Base.JLOptions)
@ Base ./client.jl:286
[16] _start()
@ Base ./client.jl:553
======================================================================================
Information request received. A stacktrace will print followed by a 1.0 second profile
======================================================================================
cmd: /opt/julia/bin/julia 1 running 0 of 1
signal (10): User defined signal 1
epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line)
uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404
uv_run at /workspace/srcdir/libuv/src/unix/core.c:430
ijl_task_get_next at /source/src/scheduler.c:457
wait at ./task.jl:1192
wait_forever at ./task.jl:1129
jfptr_wait_forever_62428.1 at /opt/julia/lib/julia/sys.so (unknown line)
_jl_invoke at /source/src/gf.c:4015 [inlined]
ijl_apply_generic at /source/src/gf.c:4212
jl_apply at /source/src/julia.h:2350 [inlined]
start_task at /source/src/task.c:1249
unknown function (ip: (nil)) at (unknown file)
==============================================================
Profile collected. A report will print at the next yield point
==============================================================
┌ Warning: There were no samples collected in one or more groups.
│ This may be due to idle threads, or you may need to run your
│ program longer (perhaps by running it multiple times),
│ or adjust the delay between samples with `Profile.init()`.
└ @ Profile /opt/julia/share/julia/stdlib/v1.13/Profile/src/Profile.jl:1362
Overhead ╎ [+additional indent] Count File:Line Function
=========================================================
Thread 1 (default) Task 0x0000774e24cf9c30 Total snapshots: 663. Utilization: 0%
╎663 @Base/task.jl:1129 wait_forever()
662╎ 663 @Base/task.jl:1192 wait()
[1] signal 15: Terminated
in expression starting at /PkgEval.jl/scripts/evaluate.jl:210
epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line)
uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404
uv_run at /workspace/srcdir/libuv/src/unix/core.c:430
ijl_task_get_next at /source/src/scheduler.c:457
wait at ./task.jl:1192
wait_forever at ./task.jl:1129
jfptr_wait_forever_62428.1 at /opt/julia/lib/julia/sys.so (unknown line)
_jl_invoke at /source/src/gf.c:4015 [inlined]
ijl_apply_generic at /source/src/gf.c:4212
jl_apply at /source/src/julia.h:2350 [inlined]
start_task at /source/src/task.c:1249
unknown function (ip: (nil)) at (unknown file)
Allocations: 12277767 (Pool: 12277588; Big: 179); GC: 10
[17] signal 15: Terminated
in expression starting at /home/pkgeval/.julia/packages/BioServices/EkekK/test/eutils.jl:2
epoll_pwait at /lib/x86_64-linux-gnu/libc.so.6 (unknown line)
uv__io_poll at /workspace/srcdir/libuv/src/unix/linux.c:1404
uv_run at /workspace/srcdir/libuv/src/unix/core.c:430
ijl_task_get_next at /source/src/scheduler.c:457
wait at ./task.jl:1192
wait_forever at ./task.jl:1129
jfptr_wait_forever_62428.1 at /opt/julia/lib/julia/sys.so (unknown line)
_jl_invoke at /source/src/gf.c:4015 [inlined]
ijl_apply_generic at /source/src/gf.c:4212
jl_apply at /source/src/julia.h:2350 [inlined]
start_task at /source/src/task.c:1249
unknown function (ip: (nil)) at (unknown file)
Allocations: 16139050 (Pool: 16138834; Big: 216); GC: 13
PkgEval terminated after 612.41s: tests became inactive