Zach@Zach-PC ~
$ cd c:/users/zach/downloads/hydra/hydra

Zach@Zach-PC /cygdrive/c/users/zach/downloads/hydra/hydra
$ ./configure

Starting hydra auto configuration ...

Checking for openssl (libssl/ssl.h) ...
                                    ... found
Checking for Postgres (libpq.so) ...
                                 ... NOT found, module postgres disabled
Checking for SVN (libsvn_client-1 libapr-1.so libaprutil-1.so) ...
                              ... NOT found, module svn disabled
Checking for firebird (libfbclient.so) ...
                                       ... NOT found, module firebird disabled
Checking for MYSQL client (libmysqlclient.so) ...
                                       ... NOT found, module Mysql will not support version > 4.x
Checking for AFP (libafpclient.so) ...
                                       ... NOT found, module Apple Filing Protocol disabled
Checking for NCP (libncp.so / nwcalls.h) ...
                                         ... NOT found, module NCP disabled
Checking for SAP/R3 (librfc/saprfc.h) ...
                                      ... NOT found, module sapr3 disabled
Get it from http://www.sap.com/solutions/netweaver/linux/eval/index.asp
Checking for libssh (libssh/libssh.h) ...
                                      ... NOT found, module ssh2 disabled
Get it from http://www.libssh.org
Checking for GUI req's (pkg-config) ...
                                    ... NOT found, optional anyway

Cygwin detected, enabling compability options ...

Hydra will be installed into .../bin of: /usr/local
  (change this by running ./configure --prefix=path)

Writing Makefile.in ...
now type "make"

Zach@Zach-PC /cygdrive/c/users/zach/downloads/hydra/hydra
$ make
gcc -I. -Wall -O2 -o pw-inspector pw-inspector.c
/usr/lib/gcc/x86_64-pc-cygwin/4.8.1/../../../../x86_64-pc-cygwin/bin/ld: cannot find -lshell32
/usr/lib/gcc/x86_64-pc-cygwin/4.8.1/../../../../x86_64-pc-cygwin/bin/ld: cannot find -luser32
collect2: error: ld returned 1 exit status
Makefile:61: recipe for target `pw-inspector' failed
make: [pw-inspector] Error 1 (ignored)
gcc -I. -Wall -O2 -lm -o hydra hydra-vnc.o hydra-pcnfs.o hydra-rexec.o hydra-nntp.o hydra-socks5.o  hydra-telnet.o hydra-cisco.o hydra-http.o hydra-ftp.o hydra-imap.o  hydra-pop3.o hydra-smb.o hydra-icq.o hydra-cisco-enable.o hydra-ldap.o  hydra-mysql.o hydra-http-proxy.o hydra-smbnt.o hydra-mssql.o  hydra-snmp.o hydra-cvs.o hydra-smtpauth.o hydra-sapr3.o hydra-ssh2.o hydra-teamspeak.o hydra-postgres.o hydra-rsh.o hydra-rlogin.o  hydra-oracle-listener.o hydra-svn.o hydra-pcanywhere.o hydra-sip.o  hydra-vmauthd.o hydra-smtpauth-ntlm.o hydra-firebird.o hydra-afp.o hydra-ncp.o  hydra-http-proxy-auth-ntlm.o hydra-imap-ntlm.o hydra-pop3-ntlm.o  hydra-http-form.o crc32.o d3des.o md4.o hydra-mod.o ntlm.o hydra.o -lm -lssl -lcrypto -L/usr/lib -L/usr/local/lib -L/lib -L/lib
/usr/lib/gcc/x86_64-pc-cygwin/4.8.1/../../../../x86_64-pc-cygwin/bin/ld: cannot find -lshell32
/usr/lib/gcc/x86_64-pc-cygwin/4.8.1/../../../../x86_64-pc-cygwin/bin/ld: cannot find -luser32
collect2: error: ld returned 1 exit status
Makefile:52: recipe for target `hydra' failed
make: *** [hydra] Error 1