Fix multiple quality issues in the source

This PR fixes multiple issues in the source code to address issues raised by
tests/scripts/check-files.py. Specifically:
 * incorrect file permissions
 * missing newline at the end of files
 * trailing whitespace
 * Tabs present
 * TODOs in the souce code

ChangeLog

@@ -1676,7 +1676,7 @@ Features
      issuer_key_identifier, etc)
    * Optional blinding for RSA, DHM and EC
    * Support for multiple active certificate / key pairs in SSL servers for
-   	 the same host (Not to be confused with SNI!)
+     the same host (Not to be confused with SNI!)
 
 Changes
    * Ability to enable / disable SSL v3 / TLS 1.0 / TLS 1.1 / TLS 1.2
@@ -1907,7 +1907,7 @@ Changes
      PKCS#8 private key formats
    * Added mechanism to provide alternative implementations for all
      symmetric cipher and hash algorithms (e.g. POLARSSL_AES_ALT in
-	 config.h)
+     config.h)
    * PKCS#5 module added. Moved PBKDF2 functionality inside and deprecated
      old PBKDF2 module
 
@@ -1919,7 +1919,7 @@ Bugfix
    * x509parse_crt() now better handles PEM error situations
    * ssl_parse_certificate() now calls x509parse_crt_der() directly
      instead of the x509parse_crt() wrapper that can also parse PEM
-	 certificates
+     certificates
    * x509parse_crtpath() is now reentrant and uses more portable stat()
    * Fixed bignum.c and bn_mul.h to support Thumb2 and LLVM compiler
    * Fixed values for 2-key Triple DES in cipher layer
@@ -2077,7 +2077,7 @@ Bugfix
    * mpi_exp_mod() now correctly handles negative base numbers (Closes ticket
      #52)
    * Handle encryption with private key and decryption with public key as per
-   	 RFC 2313
+     RFC 2313
    * Handle empty certificate subject names
    * Prevent reading over buffer boundaries on X509 certificate parsing
    * mpi_add_abs() now correctly handles adding short numbers to long numbers
@@ -2108,7 +2108,7 @@ Bugfix
    * x509parse_crt() now better handles PEM error situations
    * ssl_parse_certificate() now calls x509parse_crt_der() directly
      instead of the x509parse_crt() wrapper that can also parse PEM
-	 certificates
+     certificates
    * Fixed values for 2-key Triple DES in cipher layer
    * ssl_write_certificate_request() can handle empty ca_chain
 
@@ -2189,16 +2189,16 @@ Bugfix
 Features
    * Added ssl_session_reset() to allow better multi-connection pools of
      SSL contexts without needing to set all non-connection-specific
-	 data and pointers again. Adapted ssl_server to use this functionality.
+     data and pointers again. Adapted ssl_server to use this functionality.
    * Added ssl_set_max_version() to allow clients to offer a lower maximum
      supported version to a server to help buggy server implementations.
-	 (Closes ticket #36)
+     (Closes ticket #36)
    * Added cipher_get_cipher_mode() and cipher_get_cipher_operation()
      introspection functions (Closes ticket #40)
    * Added CTR_DRBG based on AES-256-CTR (NIST SP 800-90) random generator
    * Added a generic entropy accumulator that provides support for adding
      custom entropy sources and added some generic and platform dependent
-	 entropy sources
+     entropy sources
 
 Changes
    * Documentation for AES and Camellia in modes CTR and CFB128 clarified.
@@ -2331,7 +2331,7 @@ Bugfixes
    * Corrected parsing of UTCTime dates before 1990 and
      after 1950
    * Support more exotic OID's when parsing certificates
-   	 (found by Mads Kiilerich)
+     (found by Mads Kiilerich)
    * Support more exotic name representations when parsing
      certificates (found by Mads Kiilerich)
    * Replaced the expired test certificates
@@ -2361,7 +2361,7 @@ Note: Most of these features have been donated by Fox-IT
          status, objects and configuration
        + Added verification callback on certificate chain
          verification to allow external blacklisting
-	   + Additional example programs to show usage
+       + Additional example programs to show usage
    * Added support for PKCS#11 through the use of the
      libpkcs11-helper library
 

include/mbedtls/ssl.h

@@ -1834,7 +1834,7 @@ void mbedtls_ssl_conf_sig_hashes( mbedtls_ssl_config *conf,
  *
  * \param ssl      SSL context
  * \param hostname the server hostname, may be NULL to clear hostname
- 
+ *
  * \note           Maximum hostname length MBEDTLS_SSL_MAX_HOST_NAME_LEN.
  *
  * \return         0 if successful, MBEDTLS_ERR_SSL_ALLOC_FAILED on

library/asn1write.c

@@ -232,7 +232,6 @@ int mbedtls_asn1_write_int( unsigned char **p, unsigned char *start, int val )
     int ret;
     size_t len = 0;
 
-    // TODO negative values and values larger than 128
     // DER format assumes 2s complement for numbers, so the leftmost bit
     // should be 0 for positive numbers and 1 for negative numbers.
     //

library/ssl_tls.c

@@ -6916,41 +6916,6 @@ int mbedtls_ssl_read( mbedtls_ssl_context *ssl, unsigned char *buf, size_t len )
         }
     }
 
-    /*
-     * TODO
-     *
-     * The logic should be streamlined here:
-     *
-     * Instead of
-     *
-     * - Manually checking whether ssl->in_offt is NULL
-     * - Fetching a new record if yes
-     * - Setting ssl->in_offt if one finds an application record
-     * - Resetting keep_current_message after handling the application data
-     *
-     * one should
-     *
-     * - Adapt read_record to set ssl->in_offt automatically
-     *   when a new application data record is processed.
-     * - Always call mbedtls_ssl_read_record here.
-     *
-     * This way, the logic of ssl_read would be much clearer:
-     *
-     * (1) Always call record layer and see what kind of record is on
-     *     and have it ready for consumption (in particular, in_offt
-     *     properly set for application data records).
-     * (2) If it's application data (either freshly fetched
-     *     or something already being partially processed),
-     *     serve the read request from it.
-     * (3) If it's something different from application data,
-     *     handle it accordingly, e.g. potentially start a
-     *     renegotiation.
-     *
-     * This will also remove the need to manually reset
-     * ssl->keep_current_message = 0 below.
-     *
-     */
-
     if( ssl->in_offt == NULL )
     {
         /* Start timer if not already running */

tests/suites/test_suite_ssl.function

@@ -53,3 +53,4 @@ void ssl_set_hostname_twice( char *hostname0, char *hostname1 )
     mbedtls_ssl_free( &ssl );
 }
 /* END_CASE */
+

yotta/data/example-authcrypt/README.md

@@ -38,11 +38,11 @@ To build and run this example you must have:
 
 6. Start the serial terminal emulator and connect to the virtual serial port presented by FRDM-K64F.
 
-	Use the following settings:
+    Use the following settings:
 
-	* 115200 baud (not 9600).
+    * 115200 baud (not 9600).
-	* 8N1.
+    * 8N1.
-	* No flow control. 
+    * No flow control.
 
 7. Press the Reset button on the board.
 

yotta/data/example-benchmark/README.md

@@ -38,11 +38,11 @@ To build and run this example you must have:
 
 6. Start the serial terminal emulator and connect to the virtual serial port presented by FRDM-K64F.
 
-	Use the following settings:
+    Use the following settings:
 
-	* 115200 baud (not 9600).
+    * 115200 baud (not 9600).
-	* 8N1.
+    * 8N1.
-	* No flow control. 
+    * No flow control.
 
 7. Press the Reset button on the board.
 

yotta/data/example-hashing/README.md

@@ -38,11 +38,11 @@ To build and run this example you must have:
 
 6. Start the serial terminal emulator and connect to the virtual serial port presented by FRDM-K64F.
 
-	Use the following settings:
+    Use the following settings:
 
-	* 115200 baud (not 9600).
+    * 115200 baud (not 9600).
-	* 8N1.
+    * 8N1.
-	* No flow control. 
+    * No flow control.
 
 7. Press the Reset button on the board.
 

yotta/data/example-selftest/README.md

@@ -38,11 +38,11 @@ To build and run this example you must have:
 
 6. Start the serial terminal emulator and connect to the virtual serial port presented by FRDM-K64F.
 
-	Use the following settings:
+    Use the following settings:
 
-	* 115200 baud (not 9600).
+    * 115200 baud (not 9600).
-	* 8N1.
+    * 8N1.
-	* No flow control. 
+    * No flow control.
 
 7. Press the Reset button on the board.