I am not sure if this parameter is for that purpose because is not documented https://github.com/exakat/exakat/blob/master/projects/test/config.ini#L23 but I want that specific analyzers are not executed but I cannot find a documentation for that.

Hi,

I installed exakat on ubuntu 16.04. This is report from exakat doctor: https://pastebin.com/FR7MVBfY The first issue which I had was that this command: php exakat.phar init -p sculpin -R https://github.com/sculpin/sculpin didn't clome given repository, so entered code dir and put git clone in terminal. After that I run: php exakat.phar project -p sculpin And there was few progress bar and script ended without error, but there is no dir like: projects/sculpin/report. Why report didn't generate?

Best regards, KS

Hello, when I run Exakat, I receive the next error:

Error : gremlin-php driver has thrown the following error : Connection refused 
on file phar:///usr/src/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/Connection.php
on line 845

I receive this error also when I use docker container

Verbose log

Cleaning project
Cleaning project nlptools
removing log
removing datastore.sqlite
Removed 1 files
Recreating database
Search for external libraries
Processing files
No files to process. Aborting
Running project 'nlptools'
Running the following analysis : CompatibilityPHP53, CompatibilityPHP54, CompatibilityPHP55, CompatibilityPHP56, CompatibilityPHP70, CompatibilityPHP71, CompatibilityPHP72, Analyze, Preferences, Appinfo, Appcontent, "Dead code", Security, Custom, CompatibilityPHP73, Inventory, Performances, Dead code, Suggestions
Producing the following reports : Ambassador
Cleaning DB
start gremlin server 3.3.x
started gremlin server
Restarted in 20 rounds
started [32] in 21,031.85 ms
Running files
Check composer
Searching for files
Found the files
Check compilation for 71
Check short tag (normal pass)
Check short tag (with directive activated)
Short tag OK
Check config files
+ .git
Done
Array
(
    [notCompilable52] => N/C
    [notCompilable53] => N/C
    [notCompilable54] => N/C
    [notCompilable55] => N/C
    [notCompilable56] => N/C
    [notCompilable70] => N/C
    [notCompilable71] => 0
    [notCompilable72] => N/C
    [notCompilable73] => N/C
    [php] => 20
)
Loading with SplitGraphson

Error : gremlin-php driver has thrown the following error : Connection refused 
on file phar:///usr/src/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/Connection.php
on line 845

root@server:~/exakat# php exakat.phar init -p ES51 root@server:~/exakat# php exakat.phar project -p ES51

Error : No code in project 'ES51' on file phar:///root/exakat/exakat.phar/library/Exakat/Tasks/Files.php on line 57

Because of what this error?

cd projects/ES51/ && ls

I get this:

Error : Load task met an error : 'Warning : forgotten atom 22691 in /admin/includes/CMB2/includes/CMB2_JS.php : Ppp'
 
on file phar:///home/vagrant/exakat.phar/library/Exakat/Tasks/Load.php
on line 5155

This is the file https://github.com/CMB2/CMB2/blob/trunk/includes/CMB2_JS.php and this was excluded (https://github.com/exakat/exakat/issues/52).

I got this error:

Error : Load task met an error : 'Warning : expression is not empty in /admin/includes/cmb2-extra.php : 1Array
(
    [0] => Exakat\Tasks\Helpers\Atom Object
        (
            [id] => 2541
            [atom] => Cast
            [code] => ++
            [lccode] => 
            [fullcode] => ++  
            [line] => 64
            [token] => T_INC
            [rank] => 
            [alternative] => 
            [reference] => 
            [heredoc] => 
            [delimiter] => 
            [noDelimiter] => 
            [variadic] => 
            [count] => 
            [fullnspath] => 
            [absolute] => 
            [alias] => 
            [origin] => 
            [encoding] => 
            [block] => 
            [intval] => 
            [strval] => 
            [boolean] => 
            [enclosing] => 
            [args_max] => 
            [args_min] => 
            [bracket] => 
            [flexible] => 
            [close_tag] => 
            [aliased] => 
            [propertyname] => 
            [constant] => 
            [root] => 
            [globalvar] => 
            [binaryString] => 
            [isNull] => 
            [visibility] => 
            [final] => 
            [abstract] => 
            [static] => 
            [ctype1] => ++V
            [ctype1_size] => 1
        )

)
'

The line with issues contain:

$i++;

Removing it fixed the problem.

Hi,

When I try to scan initialised project, I have this error: Error : No such loader as "Tinkergraph". Use one of SplitGraphson

on file phar:////exakat/exakat.phar/library/Exakat/Tasks/Load.php on line 449

When checking the file I found that the loaderList array only contains SplitGraphson: private $loaderList = array('SplitGraphson'); //'CypherG3', 'Neo4jImport', 'Janusgraph', 'Tinkergraph', 'GSNeo4j', 'JanusCaES', 'Tcsv',

Is this on purpose ?

How can I get this SplitGraphson ?

Thank you !

I've installed Exakat on Ubuntu Linux with the instructions from here: https://exakat.readthedocs.io/en/latest/Installation.html#full-installation-with-debian-ubuntu

And using the Gremlin 3 installation instructions from here: https://www.exakat.io/up-and-running-with-exakat/

When I run doctor there is no output:

$ php exakat.phar doctor

$ echo $?
255

$ uname -a
Linux latitude 4.15.0-36-generic #39-Ubuntu SMP Mon Sep 24 16:19:09 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux

$ php -v
PHP 7.2.11
(abbreviated)

I know that this is not a support forum, but as I've had Exakat working in the past (on CentOS) and I've followed the installation instructions, I suppose that I should file an issue here similar to this previous no-errors crash.

HI, when I'm trying to clone Joomla! repository I got an error: php exakat.phar init -v -p joomla-3-8-3 -R https://github.com/joomla/joomla-cms.git

This is the output:

Check out with branch
An error prevented code initialization : 'Git reported an error and no code could be loaded : Remote branch master not found in upstream origin.'
.No code was loaded.
Done

What can I do to clone it? Thanks.

I added different folders to ignore but in the log results as scanned. There is a way to understand if the config is right? maybe is only scanning but ignoring them?

Followed the instructions to a T and ran:

php exakat.phar project -v -p sculpin-test

Exakat runs with the following output and then shuts down or crashes. Not sure how to debug from here.I think its probably because its a rather big PHP project and I have far too many files in the directory, but a failure/exception/stack trace would help.

Here's the output :

Cleaning project
Cleaning project sculpin-test
removing datastore.sqlite
Removed 1 files
Recreating database
Search for external libraries
Processing files
No files to process. Aborting
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
Running project 'sculpin-test'
Running the following analysis : CompatibilityPHP53, CompatibilityPHP54, CompatibilityPHP55, CompatibilityPHP56, CompatibilityPHP70, CompatibilityPHP71, CompatibilityPHP72, CompatibilityPHP73, Analyze, Preferences, Inventory, Performances, Appinfo, Appcontent, Dead code, Security, Custom
Producing the following reports : Ambassador
Cleaning DB
stop gremlin server 3.2.x
started [29624] in 4,522.93 ms
Running files
Check composer
Searching for files
Found the files
Check compilation for 71
Check compilation for 56
Check short tag (normal pass)
Check short tag (with directive activated)
Short tag OK
Check config files
+ .DS_Store
Done
Array
(
    [notCompilable52] => N/C
    [notCompilable53] => N/C
    [notCompilable54] => N/C
    [notCompilable55] => N/C
    [notCompilable56] => 0
    [notCompilable70] => N/C
    [notCompilable71] => 1
    [notCompilable72] => N/C
    [notCompilable73] => N/C
    [php] => 780
)
Loading with SplitGraphson

It crashes and returns to command prompt after SplitGraphson above.

The behavior of DateTimes has changed a few times between PHP 7.4 and PHP 8.1.17 ; and code is not retro-compatible:

https://3v4l.org/lTg7r

<?php

$time = 1319932800;

$timezoneUTC = new DateTimeZone('UTC');
$datetimeUTC1 = (new \DateTime('@' . $time));
$datetimeUTC2 = (new \DateTime('@' . $time))->setTimeZone($timezoneUTC);
$datetimeUTC3 = (new \DateTime('now', $timezoneUTC))->setTimestamp($time);
$datetimeUTC4 = (new \DateTime('now'))->setTimestamp($time)->setTimeZone($timezoneUTC);

$timezoneLocal = new DateTimeZone('Europe/Paris');
$datetimeLocal1 = (new \DateTime('@' . $time))->setTimeZone($timezoneLocal);
$datetimeLocal2 = (new \DateTime('now', $timezoneLocal))->setTimestamp($time);
$datetimeLocal3 = (new \DateTime('now'))->setTimestamp($time)->setTimeZone($timezoneLocal);

var_dump(
    $timezoneUTC,
    $datetimeUTC1,
    $datetimeUTC2,
    $datetimeUTC3,
    $datetimeUTC4,
    $timezoneLocal,
    $datetimeLocal1,
    $datetimeLocal2,
    $datetimeLocal3,
);
printf("------------------------------------\n");
var_dump(
    $time,
    $datetimeUTC1->getTimestamp(),
    $datetimeUTC2->getTimestamp(),
    $datetimeUTC3->getTimestamp(),
    $datetimeUTC4->getTimestamp(),
    $datetimeLocal1->getTimestamp(),
    $datetimeLocal2->getTimestamp(),
    $datetimeLocal3->getTimestamp(),
);

Is identifying this change in the scope of exakat ?

Expected Behavior

• running exakat to generate sample audit php exakat.phar project -p sculpin after installing / configuring should generate a sample report in projects (name of project) folder

Current Behavior

• exakat fails to generate a sample audit, file php_error.log returns the following error:

[06-Dec-2021 00:16:26 America/New_York] PHP Fatal error: Uncaught TypeError: Return value of Brightzone\GremlinDriver\RequestMessage::jsonSerialize() must be an instance of Brightzone\GremlinDriver\mixed, array returned in phar:///sample/user/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/RequestMessage.php:60

Possible Solution Replace the jsonSerialize() method and remove the :mixed from the signature (or the equiv. if possible to 'any')

`

/** * The json serialize method * * @return mixed * */ public function jsonSerialize():mixed { return $this->getData(); }

` becomes

`

/** * The json serialize method */ public function jsonSerialize() { return $this->getData(); }

`

and repackage the .phar file

Steps to Reproduce

1. Follow full installation steps to install exakat for Ubuntu 20+
2. Follow instructions for debian/ubuntu installation with Tinkergraph 3.4.9
3. init sample project php exakat.phar init -p sculpin -R https://github.com/sculpin/sculpin
4. run audit with php exakat.phar project -p sculpin

Context (Environment)

• Ubuntu 20+
• PHP 7.4.26
• followed instructions from exakat documentation to install exakat. No issues encountered per se.
• Caveat: Using openJDK 1.8 vs. Oracle Java JDK but that really should not be a difference in this issue afaik

Full stack trace is shown

[06-Dec-2021 00:16:26 America/New_York] PHP Fatal error: Uncaught TypeError: Return value of Brightzone\GremlinDriver\RequestMessage::jsonSerialize() must be an instance of Brightzone\GremlinDriver\mixed, array returned in phar:///x/iy/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/RequestMessage.php:60

Stack trace: #0 phar:///home/x/exakat-ubuntu/exakat.phar/library/Exakat/Graph/Helpers/GraphsonV3.php(306): Brightzone\GremlinDriver\RequestMessage->jsonSerialize() #1 phar:///home/x/exakat/exakat.phar/library/Exakat/Graph/Helpers/GraphsonV3.php(144): Exakat\Graph\Helpers\GraphsonV3->convertObject() #2 phar:///home/x/exakat/exakat.phar/library/Exakat/Graph/Helpers/GraphsonV3.php(84): Exakat\Graph\Helpers\GraphsonV3->convert() #3 phar:///home/x/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/Message.php(189): Exakat\Graph\Helpers\GraphsonV3->serialize() #4 phar:///home/x/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/Connection.php(184): Brightzone\GremlinDriver in phar:///home/x/exakat/exakat.phar/vendor/brightzone/gremlin-php/src/RequestMessage.php on line 60

Using guide:

https://exakat.readthedocs.io/en/stable/Tutorial.html#docker-container-within-the-code-folder

On the code folder, the following command doesn't work:

docker run -it --rm -w /src -v $(pwd):/src exakat/exakat:latest exakat project

Nor:

docker run -it --rm -w /src -v $(pwd):/src exakat/exakat:2.1.9 exakat project

It outputs:

Error : This command requires a project name. Pass the -p option, or use .exakat.yaml config file.
Aborting
 
on file phar:///usr/src/exakat/exakat/library/Exakat/Tasks/Project.php
on line 60

There is a .exakat.yaml file on the code dir with the following simple content as recommended in the guide:

project: "MyProject"

But it doesn't seem to be detected at all:

docker run -it --rm -w /src -v $(pwd):/src exakat/exakat:latest exakat doctor

returns:

Warning: mkdir(): File exists in phar:///usr/src/exakat/exakat/library/Exakat/Tasks/Doctor.php on line 232
exakat : 
    executable           : /usr/src/exakat//exakat
    version              : 2.1.9
    build                : 1156
    exakat.ini           : /usr./exakat/config/exakat.ini,
                           environnment
    graphdb              : gsneo4j
    reports              : 
    rulesets             : CompatibilityPHP53,
                           CompatibilityPHP54,
                           CompatibilityPHP55,
                           CompatibilityPHP56,
                           CompatibilityPHP70,
                           CompatibilityPHP71,
                           CompatibilityPHP72,
                           CompatibilityPHP73,
                           CompatibilityPHP74,
                           CompatibilityPHP80,
                           Analyze,
                           Preferences,
                           Appinfo,
                           Appcontent,
                           Dead code,
                           ClassReview,
                           Performances,
                           Security,
                           Custom,
                           Inventory,
                           Stats,
                           php-cs-fixable,
                           Rector
    extra rulesets       : 
    ignored rules        : 
    tokenslimit          : 100 000 000
    stubs                : 

PHP : 
    binary               : 7.4.11
    memory_limit         : -1
    short_open_tags      : Off
    ext/curl             : Yes
    ext/hash             : Yes
    ext/phar             : Yes
    ext/sqlite3          : Yes
    ext/tokenizer        : Yes
    ext/mbstring         : Yes
    ext/json             : Yes
    ext/xmlwriter        : Yes
    pcre.jit             : On (Must be off on PHP 7.3 and OSX)

java : 
    installed            : Yes
    type                 : OpenJDK Runtime Environment (build 11.0.8+10-post-Debian-1deb10u1)
    version              : openjdk
    $JAVA_HOME           : <none>
    $JAVA_OPTIONS        : 

tinkergraph : 
    configured           : No tinkergraph configured in config/exakat.ini.

tinkergraphv3 : 
    configured           : No tinkergraph configured in config/exakat.ini.

gsneo4j : 
    installed            : Yes (folder : /usr/src/exakat/tinkergraph)
    host                 : 127.0.0.1
    port                 : 8182
    gremlin version      : 3.4.8
    neo4j version        : 3.2.3

gsneo4jv3 : 
    configured           : No gsneo4jv3_folder configured in config/exakat.ini.

nogremlin : 
    installed            : Always

project : 
    name                 : 
    url                  : 
    phpversion           : 7.4
    reports              : "Ambassador"
    rulesets             : CompatibilityPHP53, CompatibilityPHP54, CompatibilityPHP55, CompatibilityPHP56, CompatibilityPHP70, CompatibilityPHP71, CompatibilityPHP72, CompatibilityPHP73, CompatibilityPHP74, CompatibilityPHP80, Analyze, Preferences, Appinfo, Appcontent, Dead code, ClassReview, Performances, Security, Custom, Inventory, Stats, php-cs-fixable, Rector
    included dirs        : 
    ignored dirs         : /assets, /cache, /css, /data, /doc, /docker, /docs, /example, /examples, /images, /js, /lang, /spec, /sql, /test, /tests, /tmp, /version, /var
    ignored rules        : 
    file extensions      : php, php3, inc, tpl, phtml, tmpl, phps, ctp, module

folders : 
    projects folder      : Yes

php74 : 
    configured           : Yes (/usr/local/bin/php)
    actual version       : 7.4.11
    auditing             : with this version

Specially this part:

project : 
    name                 : 
    url                  : 
[...]

folders : 
    projects folder      : Yes

And this dot in the exakat.ini part seems suspicious:

exakat : 
    executable           : /usr/src/exakat//exakat
    version              : 2.1.9
    build                : 1156
    exakat.ini           : /usr./exakat/config/exakat.ini,
                           environnment

It says: /usr./exakat/config/exakat.ini.

But running the following command, changing the working dir, also changes the path, making it look as ir replaced the working dir with a dot:

Command:

docker run -it --rm -w / -v $(pwd):/src exakat/exakat:latest exakat doctor

Returns: (notice the multiple dots on exakat.ini entry and the lack of the mkdir() error at the beginning).

exakat : 
    executable           : /usr/src/exakat//exakat
    version              : 2.1.9
    build                : 1156
    exakat.ini           : .usr.src.exakat.config.exakat.ini,
                           environnment
(...)

Running on bare metal Linux Ubuntu 18.04.5. Docker version 19.03.6, build 369ce74a3c.

Also tried the projects folder mode (with -p and symlinking at the init command (with -R .... -symlink) without results too, said it couldn't find code, but this in-code-directory setup fits much better my use case).

Thanks in advance!!

I've just installed this tool and wanted to check this ruleset https://exakat.readthedocs.io/en/latest but got an error:

Can't produce Emissary format. There are 1 missing rulesets : CompatibilityPHP80.

The doctor command confirms that there is no ruleset for php8.

rulesets             : CompatibilityPHP53,
                           CompatibilityPHP54,
                           CompatibilityPHP55,
                           CompatibilityPHP56,
                           CompatibilityPHP70,
                           CompatibilityPHP71,
                           CompatibilityPHP72,
                           Analyze,
                           Preferences,
                           Appinfo,
                           Appcontent,
                           "Dead code",
                           Security,
                           Custom

Documentation says that it should be there so I think it's a bug

This fixes the assignment of a string value to a variable that is used as an array later on.

Without this fix, following the instructions here: https://exakat.readthedocs.io/en/latest/Installation.html#composer-installation-first-run on a machine that does not have Java installed, would cause the following error:

Fatal error: Uncaught Error: [] operator not supported for strings in .../exakat/vendor/exakat/exakat/library/Exakat/Tasks/Install.php on line 48

After applaying this fix, the installation task gives the desired output:

Zip 3.0 : OK
Please install Java 1.8
Fix the above 1 and try again

this function is still not working, any new update? fix?

Originally posted by @oliverhavrila in https://github.com/exakat/exakat/issues/84#issuecomment-696592996