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Como emitir e gerar o certificate request

Fontes: 
https://www.rnp.br/servicos/servicos-avancados/icpedu/certificado-corporativo
https://wiki.rnp.br/pages/viewpage.action?pageId=86102856

Gerar certificado

Criar Diretório: mkdir ~/domain.com.ssl

Gerar RSA: openssl genrsa -out ~/domain.com.ssl/domain.com.key 2048

Gerar CSR: openssl req -new -sha256 -key ~/domain.com.ssl/domain.com.key -out ~/domain.com.ssl/domain.com.csr

Exemplo

Criar Diretório: mkdir ~/jcr2.ifsp.edu.br.ssl

Gerar RSA: openssl genrsa -out ~/jcr2.ifsp.edu.br.ssl/jcr2.ifsp.edu.br.key 2048

Gerar CSR: openssl req -new -sha256 -key ~/jcr2.ifsp.edu.br.ssl/jcr2.ifsp.edu.br.key -out ~/jcr2.ifsp.edu.br.ssl/jcr2.ifsp.edu.br.csr

As seguintes perguntas serão feitas (respostas abaixo)

You are about to be asked to enter information that will be incorporated into your certificate request.
What you are about to enter is what is called a Distinguished Name or a DN.
There are quite a few fields but you can leave some blank
For some fields there will be a default value,
If you enter '.', the field will be left blank.
-----
Country Name (2 letter code) [AU]:BR
State or Province Name (full name) [Some-State]:SP
Locality Name (eg, city) []:Sao Paulo
Organization Name (eg, company) [Internet Widgits Pty Ltd]:INSTITUTO FEDERAL DE EDUCACAO, CIENCIA E TECNOLOGIA DE SAO PAULO
Organizational Unit Name (eg, section) []:
Common Name (e.g. server FQDN or YOUR name) []:jcr2.ifsp.edu.br
Email Address []:

Please enter the following 'extra' attributes to be sent with your certificate request
A challenge password []:
An optional company name []:

Após gerar e enviar o CSR para a Reitoria, você deve baixar o novo certificado "intermediate.pem" para ser utilizado em conjunto com o certificado que você utilizará: LINK_DE_DOWNLOAD

Se ainda não possuir, você também deve baixar o "gs_root.pem" LINK_DE_DOWNLOAD

Certificados emitidos a partir de 27/5/2019 devem obrigatoriamente utilizar o novo "intermediate.pem" citado acima

Renomeie o arquivo para "intermediate.pem" caso você só utilize certificados gerados a partir da data acima

Para fins de registro, adiciono aqui o conteúdo dos arquivos:

gs_root.pem

-----BEGIN CERTIFICATE-----
MIIDXzCCAkegAwIBAgILBAAAAAABIVhTCKIwDQYJKoZIhvcNAQELBQAwTDEgMB4G
A1UECxMXR2xvYmFsU2lnbiBSb290IENBIC0gUjMxEzARBgNVBAoTCkdsb2JhbFNp
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A1UEChMKR2xvYmFsU2lnbjETMBEGA1UEAxMKR2xvYmFsU2lnbjCCASIwDQYJKoZI
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Mx86OyXShkDOOyyGeMlhLxS67ttVb9+E7gUJTb0o2HLO02JQZR7rkpeDMdmztcpH
WD9f
-----END CERTIFICATE-----

intermediate_a_partir_27.5.pem

-----BEGIN CERTIFICATE-----
MIIFaDCCBFCgAwIBAgIQdR4+54VB4tfq7ONxbGDjnjANBgkqhkiG9w0BAQsFADBjMQswCQYDVQQG
EwJCRTEVMBMGA1UECxMMVHJ1c3RlZCBSb290MRkwFwYDVQQKExBHbG9iYWxTaWduIG52LXNhMSIw
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VCpi/TwwxybTPJIFOWPHt7GdN7o=
-----END CERTIFICATE-----

-----BEGIN CERTIFICATE-----
MIIEXDCCA0SgAwIBAgILBAAAAAABNumCOV0wDQYJKoZIhvcNAQELBQAwTDEgMB4GA1UECxMXR2xv
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-----END CERTIFICATE-----