Greetings!
I was uploading a .zip file to my website, after it was finished with the upload I returned to my home directory and everything looks like this (.htaccess is also missing for some reason):
I checked the error log and it showed this
and;
A warning occurred while processing this directive.
I was uploading a .zip file to my website, after it was finished with the upload I returned to my home directory and everything looks like this (.htaccess is also missing for some reason):

I checked the error log and it showed this
Code:
[Wed Feb 15 21:57:32 2017] [crit] [client 124.106.138.138] (13)Permission denied: /home/count1n/.htaccess pcfg_openfile: unable to check htaccess file, ensure it is readable, referer: http://counting-hours.com/
[Wed Feb 15 21:57:32 2017] [crit] [client 124.106.138.138] (13)Permission denied: /home/count1n/.htaccess pcfg_openfile: unable to check htaccess file, ensure it is readable, referer: http://counting-hours.com/
[Wed Feb 15 21:57:32 2017] [crit] [client 124.106.138.138] (13)Permission denied: /home/count1n/.htaccess pcfg_openfile: unable to check htaccess file, ensure it is readable
[Wed Feb 15 21:57:32 2017] [crit] [client 124.106.138.138] (13)Permission denied: /home/count1n/.htaccess pcfg_openfile: unable to check htaccess file, ensure it is readable
A warning occurred while processing this directive.
Code:
Failed to save cache file “/home/count1n/.cpanel/nvdata.cache” because of an error: (XID hszkrf) The system failed to create the file “/home/count1n/.cpanel/nvdata.cache.tmp.38947426” with permissions “0640” (EUID: “2089”; EGID: “2089”) because of an error: Permission denied at /usr/local/cpanel/Cpanel/NVData.pm line 119.
at /usr/local/cpanel/Cpanel/NVData.pm line 119.
Cpanel::NVData::catch {...} (Cpanel::Exception::IO::FileCreateError=HASH(0x9dc47a0)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/Try/Tiny.pm line 103
Try::Tiny::try(CODE(0x9daa0c0), Try::Tiny::Catch=REF(0x9ccd978)) called at /usr/local/cpanel/Cpanel/NVData.pm line 121
Cpanel::NVData::_savecache() called at /usr/local/cpanel/Cpanel/NVData.pm line 235
Cpanel::NVData::_loadcache(1) called at /usr/local/cpanel/Cpanel/NVData.pm line 259
Cpanel::NVData::_get("xmaingroupsorder") called at /usr/local/cpanel/Cpanel/API/NVData.pm line 21
Cpanel::API::NVData::get(Cpanel::Args=HASH(0x9dc4098), Cpanel::Result=HASH(0x9dc3e58)) called at /usr/local/cpanel/Cpanel/API.pm line 284
Cpanel::API::__ANON__() called at /usr/local/cpanel/Cpanel/API.pm line 356
eval {...} called at /usr/local/cpanel/Cpanel/API.pm line 356
Cpanel::API::_eval_guard(Cpanel::Result=HASH(0x9dc3e58), CODE(0x9dc4230)) called at /usr/local/cpanel/Cpanel/API.pm line 284
Cpanel::API::_run_module_function(Cpanel::Args=HASH(0x9dc4098), Cpanel::Result=HASH(0x9dc3e58), "NVData", "get") called at /usr/local/cpanel/Cpanel/API.pm line 142
Cpanel::API::execute("NVData", "get", HASH(0x9d580e8)) called at /usr/local/cpanel/Cpanel/Template/Plugin/CPDefault.pm line 59
Cpanel::Template::Plugin::CPDefault::_execute_or_die("NVData", "get", HASH(0x9d580e8)) called at /usr/local/cpanel/base/frontend/paper_lantern/_assets/get_application_from_available_applications_macro.html.tt line 2
eval {...} called at /usr/local/cpanel/base/frontend/paper_lantern/_assets/get_application_from_available_applications_macro.html.tt line 2
eval {...} called at /usr/local/cpanel/base/frontend/paper_lantern/_assets/get_application_from_available_applications_macro.html.tt line 5
Template::Provider::__ANON__(Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 163
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 161
Template::Document::process(Template::Document=HASH(0x9d57f68), Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 351
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 321
Template::Context::process(Template::Context=HASH(0x9ccc768), "_assets/get_application_from_available_applications_macro.htm"...) called at /usr/local/cpanel/base/frontend/paper_lantern/_assets/master.html.tt line 89
eval {...} called at /usr/local/cpanel/base/frontend/paper_lantern/_assets/master.html.tt line 16
Template::Provider::__ANON__(Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 163
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 161
Template::Document::process(Template::Document=HASH(0x9da9a60), Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 351
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 321
Template::Context::process(Template::Context=HASH(0x9ccc768), "_assets/master.html.tt", HASH(0x9cce528), "localize me!") called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 409
Template::Context::include(Template::Context=HASH(0x9ccc768), "_assets/master.html.tt", HASH(0x9cce528)) called at /usr/local/cpanel/base/frontend/paper_lantern/stats/errlog.html.tt line 21
eval {...} called at /usr/local/cpanel/base/frontend/paper_lantern/stats/errlog.html.tt line 16
Template::Provider::__ANON__(Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 163
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Document.pm line 161
Template::Document::process(Template::Document=HASH(0x9ccf1c8), Template::Context=HASH(0x9ccc768)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 351
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Context.pm line 321
Template::Context::process(Template::Context=HASH(0x9ccc768), Template::Document=HASH(0x9ccf1c8)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Service.pm line 94
eval {...} called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template/Service.pm line 91
Template::Service::process(Template::Service=HASH(0x9ccc228), "/usr/local/cpanel/base/frontend/paper_lantern/stats/errlog.ht"..., HASH(0x8df3540)) called at /usr/local/cpanel/3rdparty/perl/522/lib64/perl5/cpanel_lib/x86_64-linux-64int/Template.pm line 66
Template::process(Template=HASH(0x9ccc378), "/usr/local/cpanel/base/frontend/paper_lantern/stats/errlog.ht"..., HASH(0x8df3540), SCALAR(0x21d5240)) called at /usr/local/cpanel/Cpanel/Template.pm line 435
Cpanel::Template::process_template("cpanel", HASH(0x8df3540), HASH(0x8af8348)) called at cpanel.pl line 1206
cpanel::cpanel::cptt_exectag("/usr/local/cpanel/base/frontend/paper_lantern/stats/errlog.ht"..., 1) called at cpanel.pl line 5197
cpanel::cpanel::run_standard_mode() called at cpanel.pl line 862
cpanel::cpanel::script("cpanel::cpanel", "./frontend/paper_lantern/stats/errlog.html.tt") called at cpanel.pl line 332