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An interesting Tailscale + Docker gotcha

2026-01-29T00:00:00Z

As I’ve written about before, I use Tailscale for a lot of things. I thought I had it set up in a reasonably secure manner, but I recently noticed a problem.

I use Tailscale’s ACLs to limit what each node can access, based on the tags I apply to it. So an app node can’t access anything via Tailscale, while an integration or server node can access things tagged with either app or integration. This is expressed pretty simply in the Tailscale ACL JSON:

{
	"tagOwners": {
		// Servers that can be SSH'd into
		"tag:server": [],
		// Applications that are exposed on tailscale but never connect out
		"tag:app": [],
		// Things which talk to other services over tailscale (connecting to apps etc)
		"tag:integration": [],
	},
	"grants": [
		{
			// Users can access everything
			"src": ["autogroup:member"],
			"dst": ["*"],
			"ip":  ["*"],
		},
		{
			// Servers and integrations can access integrations and apps
			"src": ["tag:server", "tag:integration"],
			"dst": ["tag:integration", "tag:app"],
			"ip":  ["*"],
		},
	],
}

Over the past week I’ve been setting up a private Forgejo instance behind Tailscale, complete with an actions runner that runs things using a docker-in-docker container. I didn’t want the runner knowing anything about Tailscale, so I had it configured to speak to Forgejo direct over HTTP (forgejo:3000) instead of using full Tailscale HTTPS URL that I use when accessing it (http://git.example-net.ts.net/)¹.

Everything was going fine, until I forgot to do that translation… and it worked. My Forgejo action runners could access anything on my tailnet. I run several things on Tailscale that just have authentication turned off, on the basis that only authorised devices can access them. Things like the admin interface for this website. I definitely didn’t intend for any workflow I run on my git server to have access to edit my website!

This wasn’t just limited to Forgejo, either. Any docker container I was running could access the tailnet. In hindsight it’s fairly obvious why: the host is running Tailscale, connected as a node tagged with my server tag. That creates a tailscale0 interface, and automagically sets up iptables rules to route Tailscale traffic over the interface. Docker also automagically sets up iptables rules to bridge traffic, and apparently these two sets of rules interact in such a way that traffic from Docker containers is allowed to route via the tailscale0 interface.

I say it’s fairly obvious in hindsight — there’s no reason why Docker would special case any particular host interface after all — but it still feels pretty surprising. Because both bits of software inject their own iptables rules, I never really had a good mental model for how they interact. The host Tailscale node was a completely separate building block to Docker. It would be a pain to use either of them if they didn’t do these rules, but it’s also one of the reasons I don’t really like “magical” things².

There are lots of ways to fix this, but none of them feel particularly great. You can configure both Tailscale and Docker to not automatically fiddle with iptables and handle the rules yourself, but I really hate dealing with iptables³. As a stopgap I did hold my nose and add some iptables rules to drop traffic to the tailscale0 interface if it originated from the IP ranges that Docker was configured to use:

iptables -I DOCKER-USER -s 192.168.0.0/16 -o tailscale0 -j DROP
iptables -I DOCKER-USER -s 172.17.0.0/12 -o tailscale0 -j DROP

The DOCKER-USER chain is a nice little escape hatch; it comes before the main auto-generated DOCKER chain, and Docker leaves the rules in it alone.

So I added these rules, and felt pretty good about myself, and then… everything started breaking in weird ways. After some debugging I realised the problem was DNS⁴. The server’s DNS resolver is 100.100.100.100, a special Tailscale address. This is so that it can resolve tailnet hostnames via MagicDNS (and so I don’t have to configure my custom DNS servers manually on each device; Tailscale does it for me). My new iptables rules inadvertently dropped all the DNS packets coming from docker containers. D’oh.

Obviously the solution here is to double down and add MORE iptables rules:

iptables -I DOCKER-USER -s 192.168.0.0/16 -d 100.100.100.100 -o tailscale0 -j ACCEPT
iptables -I DOCKER-USER -s 172.17.0.0/12 -d 100.100.100.100 -o tailscale0 -j ACCEPT

This got DNS working again, but it all feels a bit gross. Not least because to actually make these persist you need to use iptables-save, and then you also get all the rules that both Docker and Tailscale have inserted. I came across a script to filter out the Docker ones, but… yuck⁵.

I realised a cleaner idea might just be to lock down what server tagged nodes could access within Tailscale itself. That way I can avoid touching iptables at all. It’s handy to be able to curl services from the host when debugging, but it’s not really necessary. So I removed that access, and… stuff broke again. I’m using my Forgejo instance as a registry for some of the docker images I run, so the docker daemon needs to be able to reach it. I ended up making a new tag for infrastructure, which can be accessed from server devices. This does still allow all the docker containers to reach Forgejo, but I already have it set up with appropriate access controls and public/private repository splits. Forgejo is a service designed to run publicly, so this seems a reasonable trade-off for convenience. I used the tests feature of Tailscale’s ACL config to make sure I’d got the rules right:

{
	"tests": [
		{
			// Servers can only access infrastructure
			"src":   "tag:server",
			"proto": "tcp",
			"allow": [
				"tag:infrastructure:8080",
			],
			"deny": [
				"100.84.16.43:8080",
				"me@example.com:8080",
				"tag:server:8080",
				"tag:app:8080",
				"tag:integration:8080",
			],
		},
	],
}

The whole situation still feels a bit messy. If I ever get around to switching to nftables I might loop back and manually craft some rules for routing traffic, instead of leaving Tailscale and Docker to do their own thing.

I discovered later on that logging into the container registry at forgejo:3000 actually issued a redirect to https://git.example-net.ts.net/ so this was all basically for naught… ↩︎
I didn’t use Tailscale’s MagicDNS for a long time just because the word “magic” put me off. Only when I eventually got around to learning how it worked, and seeing that it wasn’t really that magical under the hood, did I change my mind. ↩︎
nftables seems far better in lots of ways, but I can’t really be bothered migrating. Maybe next time I reimage the server for whatever reason… ↩︎
It’s always DNS… ↩︎
Again, nftables would almost certainly help here. It actually has (gasp) configuration files. But again, I really didn’t want to spend the time migrating. ↩︎

Adventures in IPv6 routing in Docker

2022-10-24T00:00:00Z

One of the biggest flaws in Docker’s design is that it wasn’t created with IPv6 in mind. Out of the box Docker assigns each container a private IPv4 address, and they won’t be able to reach IPv6-only services. While incoming connections might work, the containers won’t know the correct remote IP address which can cause problems for some applications. This situation is obviously suboptimal in the current day and age. It’s a bit like not supporting HTTPS on a website — you might not have any issues because of it immediately, but you’re fighting against the currents of progress and are making life worse for your users.

Thankfully, it’s now relatively easy to make Docker behave a lot nicer. The docker-ipv6nat project has been around since 2016, and uses an IPv6 overlay network and some iptables magic to route traffic to and from containers in a sensible fashion. It uses NAT to emulate the behaviour Docker employs for IPv4 traffic; while using NAT with IPv6 is an anathema, I think it makes sense for containers. You could give each container a publicly routable IPv6 address, but that brings with it a lot of headaches: you’re basically going to be forced to implement service discovery and some kind of DNS management to deal with the fact that your containers will be popping up on randomly assigned IP addresses. That is completely overkill for people running a small number of services on one or two physical boxes; and if it’s not overkill for you then you’re probably already looking at more complicated orchestration solutions like Kubernetes.

More recently, similar functionality has been built into the Docker daemon itself. You can now edit the config file to enable ipv6 and each container will be assigned an address in the range specified when it uses the default bridge network. This gives more-or-less the same functionality of docker-ipv6nat — you lose a little flexibility as you can’t disable IPv6 on the default bridge, but that’s a very worthy trade for having the functionality built-in.

So far this all seems very simple. Hardly worthy of being called an “adventure”. Enter stage left: the wicked witch of destination address selection…

Destination address selection and you

When a computer program tries to connect to an address such as google.com, it first resolves it in to an IP address. That’s DNS 101, but what happens if the address resolves to multiple IP addresses? For example, google.com resolves to both 142.250.74.206 and 2a00:1450:4001:82b::200e. You might just assume there’s a simple “prefer IPv4 / prefer IPv6” toggle somewhere that decides, but it’s actually a lot more complicated. With IPv6, devices are likely to have many addresses - a link-local address, a unique local address, a normal public address, various privacy addresses, and so on. To deal with this, a number of RFCs define a series of rules that most implementations follow. These are called the destination address selection rules. RFC6724 gives the rules as:

Avoid unusable destinations
Prefer matching scope
Avoid deprecated addresses
Prefer home addresses
Prefer matching label
Prefer higher precedence
Prefer native transport
Prefer smaller scope
Use the longest matching prefix
Otherwise, leave the order unchanged

Applying these rules will re-order the list of IP addresses such that (in theory) the most likely one to work will be first. Most of them are fairly niche rules; the ones that do the heavy lifting are rules 5 and 6, which rely on a policy table to make their decisions. The policy table ‘SHOULD’ be configurable by system administrators to allow them to tweak how traffic is routed. In the absence of an admin-provided policy table, the RFC gives the following defaults:

Prefix	Precedence	Label	Notes
`::1/128`	50	0	Loopback address
`::/0`	40	1	Any IPv6 address
`::ffff:0:0/96`	35	4	IPv4 addresses mapped as v6 addresses
`2002::/16`	30	2	6-to-4 gateways
`2001::/32`	5	5	Toredo tunnels
`fc00::/7`	3	13	Unique Local Addresses (ULAs)
`::/96`	1	3	IPv4 compatible addresses (deprecated)
`fec0::/10`	1	11	Site-local addresses (deprecated)
`3ffe::/16`	1	12	6bone (deprecated)

The policy table is a bit complex, but you can see that normal IPv6 addresses are preferred (have a higher precedence) over IPv4 addresses, which are preferred over the various tunnels, local addresses, and various deprecated ranges.

We can see the result of this when I run ping google.com on a box that has a native IPv6 connection as well as a native IPv4 connection:

PING google.com(fra07s29-in-x200e.1e100.net (2a00:1450:4001:802::200e)) 56 data bytes
64 bytes from fra24s01-in-x0e.1e100.net (2a00:1450:4001:802::200e): icmp_seq=1 ttl=119 time=5.11 ms
64 bytes from fra24s01-in-x0e.1e100.net (2a00:1450:4001:802::200e): icmp_seq=2 ttl=119 time=5.28 ms
64 bytes from fra07s29-in-x200e.1e100.net (2a00:1450:4001:802::200e): icmp_seq=3 ttl=119 time=5.31 ms
^C
--- google.com ping statistics ---
3 packets transmitted, 3 received, 0% packet loss, time 2003ms
rtt min/avg/max/mdev = 5.114/5.235/5.311/0.086 ms

The address selection in this instance has been a result of rule 6: the IPv6 address has a higher precedence (40) than the IPv4 address (35).

However, if I run the same command in an IPv6-enabled Ubuntu container then it seems to prefer the IPv4 address:

PING google.com (172.217.16.206) 56(84) bytes of data.
64 bytes from fra16s08-in-f206.1e100.net (172.217.16.206): icmp_seq=1 ttl=59 time=4.86 ms
64 bytes from fra16s08-in-f14.1e100.net (172.217.16.206): icmp_seq=2 ttl=59 time=4.86 ms
64 bytes from fra16s08-in-f14.1e100.net (172.217.16.206): icmp_seq=3 ttl=59 time=5.03 ms
^C
--- google.com ping statistics ---
3 packets transmitted, 3 received, 0% packet loss, time 2003ms
rtt min/avg/max/mdev = 4.860/4.916/5.027/0.078 ms

If I force ping to use IPv6 with the -6 flag then it works the same as on the host, but when left to its own devices it prefers IPv4. What’s going on there? The key difference between the Docker container and the host is that the host’s network interfaces have public addresses, but the container has a private IPv4 address (172.19.0.7) and a private IPv6 address (fd00:dead:beef::7). My first reaction to this was to think “Ah yes, fc00::/7 has a lower precedence than native IPv4, that makes sense”, but that’s not quite right. These are the destination address selection rules; rule 6 doesn’t care about the source addresses. This is actually rule 5 at work: the label of source IPv6 address is 13, but the label of the destination address is 1; meanwhile both the source and destination IPv4 addresses are 4. This sorts the IPv4 address before the IPv6 one, and rule 6 becomes irrelevant.

Adjusting the policy table

Thankfully, the RFC says the policy table should be configurable by system administrators, so those of us who are doing unorthodox things like NAT’ing IPv6 can customise the behaviour to fit our weird environments. The configuration is done via the /etc/gai.conf file (‘gai’ standing for getaddrinfo, the function in the standard library responsible for dealing with all these rules). The gai.conf file by default (if it exists) will likely just contain comments and examples; if there are no uncommented “label” or “precedence” lines then the library will use its built-in defaults based on the RFC requirements.

To make our container happy, we need to cause fd00::/8 to have the same label as a public IPv6 address. To do this we can uncomment the default labels in gai.conf and then add a single extra line, like so:

 label ::1/128       0
 label ::/0          1
 label 2002::/16     2
 label ::/96         3
 label ::ffff:0:0/96 4
 label fec0::/10     5
 label fc00::/7      6
 label 2001:0::/32   7
+label fd00::/8      1

Because fd00::/8 has a longer prefix than fc00::/7 it will match our addresses and give them a label of 1, the same as a public IPv6 address would get. This makes rule 5 leave it alone, and the default precedence table used by the standard library will put the IPv6 address above the IPv4 address. (They don’t bother giving fc00::/7 a separate precedence as listed in the RFC because rule 5 would have already de-prioritised those addresses, as we discovered.)

Making this small change to the gai.conf file in our Ubuntu container makes it start preferring the IPv6 address for google.com:

PING google.com(fra16s65-in-x0e.1e100.net (2a00:1450:4001:806::200e)) 56 data bytes
64 bytes from fra15s29-in-x0e.1e100.net (2a00:1450:4001:806::200e): icmp_seq=1 ttl=118 time=5.00 ms
64 bytes from fra15s29-in-x0e.1e100.net (2a00:1450:4001:806::200e): icmp_seq=2 ttl=118 time=5.10 ms
64 bytes from fra16s65-in-x0e.1e100.net (2a00:1450:4001:806::200e): icmp_seq=3 ttl=118 time=5.08 ms
^C
--- google.com ping statistics ---
3 packets transmitted, 3 received, 0% packet loss, time 2004ms
rtt min/avg/max/mdev = 5.002/5.058/5.098/0.040 ms

A fairly complicated problem, but a simple fix!

But wait, there’s more…

Unfortunately, this fix won’t work on containers that use alpine. And that is a lot of containers. Alpine uses musl as its standard library, rather than the much more common glibc. There is very little documentation on the subject, but if you browse the source code for musl you will see that it doesn’t implement any way at all to configure the policy tables. In network/lookup_name.c we can see the sorting logic:

	/* The following implements a subset of RFC 3484/6724 destination
	 * address selection by generating a single 31-bit sort key for
	 * each address. Rules 3, 4, and 7 are omitted for having
	 * excessive runtime and code size cost and dubious benefit.
	 * So far the label/precedence table cannot be customized. */
	for (i=0; i<cnt; i++) {
		int family = buf[i].family;
		int key = 0;
		struct sockaddr_in6 sa6 = { 0 }, da6 = {
			.sin6_family = AF_INET6,
			.sin6_scope_id = buf[i].scopeid,
			.sin6_port = 65535
		};
		struct sockaddr_in sa4 = { 0 }, da4 = {
			.sin_family = AF_INET,
			.sin_port = 65535
		};
		void *sa, *da;
		socklen_t salen, dalen;
		if (family == AF_INET6) {
			memcpy(da6.sin6_addr.s6_addr, buf[i].addr, 16);
			da = &da6; dalen = sizeof da6;
			sa = &sa6; salen = sizeof sa6;
		} else {
			memcpy(sa6.sin6_addr.s6_addr,
				"\0\0\0\0\0\0\0\0\0\0\xff\xff", 12);
			memcpy(da6.sin6_addr.s6_addr+12, buf[i].addr, 4);
			memcpy(da6.sin6_addr.s6_addr,
				"\0\0\0\0\0\0\0\0\0\0\xff\xff", 12);
			memcpy(da6.sin6_addr.s6_addr+12, buf[i].addr, 4);
			memcpy(&da4.sin_addr, buf[i].addr, 4);
			da = &da4; dalen = sizeof da4;
			sa = &sa4; salen = sizeof sa4;
		}
		const struct policy *dpolicy = policyof(&da6.sin6_addr);
		int dscope = scopeof(&da6.sin6_addr);
		int dlabel = dpolicy->label;
		int dprec = dpolicy->prec;
		int prefixlen = 0;
		int fd = socket(family, SOCK_DGRAM|SOCK_CLOEXEC, IPPROTO_UDP);
		if (fd >= 0) {
			if (!connect(fd, da, dalen)) {
				key |= DAS_USABLE;
				if (!getsockname(fd, sa, &salen)) {
					if (family == AF_INET) memcpy(
						sa6.sin6_addr.s6_addr+12,
						&sa4.sin_addr, 4);
					if (dscope == scopeof(&sa6.sin6_addr))
						key |= DAS_MATCHINGSCOPE;
					if (dlabel == labelof(&sa6.sin6_addr))
						key |= DAS_MATCHINGLABEL;
					prefixlen = prefixmatch(&sa6.sin6_addr,
						&da6.sin6_addr);
				}
			}
			close(fd);
		}
		key |= dprec << DAS_PREC_SHIFT;
		key |= (15-dscope) << DAS_SCOPE_SHIFT;
		key |= prefixlen << DAS_PREFIX_SHIFT;
		key |= (MAXADDRS-i) << DAS_ORDER_SHIFT;
		buf[i].sortkey = key;
	}
	qsort(buf, cnt, sizeof *buf, addrcmp);

We can see if the address labels match, the sort key is adjusted using the DAS_MATCHINGLABEL constant. But where do the labels come from? For that we need to investigate the policyof func:

static const struct policy {
	unsigned char addr[16];
	unsigned char len, mask;
	unsigned char prec, label;
} defpolicy[] = {
	{ "\0\0\0\0\0\0\0\0\0\0\0\0\0\0\0\1", 15, 0xff, 50, 0 },
	{ "\0\0\0\0\0\0\0\0\0\0\xff\xff", 11, 0xff, 35, 4 },
	{ "\x20\2", 1, 0xff, 30, 2 },
	{ "\x20\1", 3, 0xff, 5, 5 },
	{ "\xfc", 0, 0xfe, 3, 13 },
#if 0
	/* These are deprecated and/or returned to the address
	 * pool, so despite the RFC, treating them as special
	 * is probably wrong. */
	{ "", 11, 0xff, 1, 3 },
	{ "\xfe\xc0", 1, 0xc0, 1, 11 },
	{ "\x3f\xfe", 1, 0xff, 1, 12 },
#endif
	/* Last rule must match all addresses to stop loop. */
	{ "", 0, 0, 40, 1 },
};

static const struct policy *policyof(const struct in6_addr *a)
{
	int i;
	for (i=0; ; i++) {
		if (memcmp(a->s6_addr, defpolicy[i].addr, defpolicy[i].len))
			continue;
		if ((a->s6_addr[defpolicy[i].len] & defpolicy[i].mask)
		    != defpolicy[i].addr[defpolicy[i].len])
			continue;
		return defpolicy+i;
	}
}

So the policyof func simply uses the defpolicy array to find the policy that applies to an address. This defpolicy array contains a number of hardcoded entries which correspond exactly to the ones provided in the RFC. The one causing us problems is { "\xfc", 0, 0xfe, 3, 13 } which matches fc00::/7 addresses.

Unfortunately, without recompiling musl from source there’s not much we can do to address this directly. The only way we can make the containers work as desired is to give them a different address range. Ideally this would be a range that you control and that is otherwise not used, but there’s a good chance you won’t have such a range. One possible alternative is the 2001:db8::/32 range which is reserved for documentation purposes. This doesn’t feature in any of the policy tables, so is treated like a normal public IPv6 address. It doesn’t feel great to misuse a reserved range like that, but it’s probably the least of all evils, at least until musl allows configuring the policy table.

Debugging beyond the debugger

2019-05-08T00:00:00Z

Real-life debugging tools

Most programming — and sysadmin — problems can be debugged in a fairly straight forward manner using logs, print statements, educated guesses, or an actual debugger. Sometimes, though, the problem is more elusive. There’s a wider box of tricks that can be employed in these cases but I’ve not managed to find a nice overview of them, so here’s mine. I’m mainly focusing on Linux and similar systems, but there tend to be alternatives available for other Operating Systems or VMs if you seek them out.

Networking

tcpdump

tcpdump prints out descriptions of packets on a network interface. You can apply filters to limit which packets are displayed, chose to dump the entire content of the packet, and so forth.

Typical usage might look something like:

# tcpdump -nSi eth0 port 80
tcpdump: verbose output suppressed, use -v or -vv for full protocol decode
listening on eth0, link-type EN10MB (Ethernet), capture size 262144 bytes
16:03:35.577781 IP6 2001:db8::1.54742 > 2001:db8::2.80: Flags [S], seq 2815779044, win 64800, options [mss 1440,sackOK,TS val 2378811665 ecr 0,nop,wscale 7], length 0
16:03:35.586853 IP6 2001:db8::2.80 > 2001:db8::1.54742: Flags [S.], seq 1522609102, ack 2815779045, win 28560, options [mss 1440,sackOK,TS val 3063610173 ecr 2378811665,nop,wscale 7], length 0
16:03:35.586877 IP6 2001:db8::1.54742 > 2001:db8::2.80: Flags [.], ack 1522609103, win 507, options [nop,nop,TS val 2378811674 ecr 3063610173], length 0
16:03:35.620678 IP6 2001:db8::1.54742 > 2001:db8::2.80: Flags [P.], seq 2815779045:2815779399, ack 1522609103, win 507, options [nop,nop,TS val 2378811708 ecr 3063610173], length 354: HTTP: GET / HTTP/1.1

Here you can see the start of a plaintext HTTP request: the three-way handshake as the TCP connection is established followed by a GET request. Even if the data is encrypted as it will be in most cases, it’s often useful to see the “shape” of the transmissions: did the client start sending data when it connected, did the server ever respond, etc.

Daniel Miessler has a good tutorial on tcpdump if you’re not familiar with it and don’t want to jump straight into the man page.

… with Docker

Docker sets up separate network namespaces for each container. To see the traffic across the interfaces of a single container you can nsenter the container’s network namespace:

# nsenter -t $(docker inspect --format '{{.State.Pid}}' my_container) -n tcpdump -nS port 80

This retrieves the PID for the container, and tells nsenter to enter the network (-n) namespace from the given target (-t) PID, and then run the given command (in this case tcpdump ...).

openssl s_client / s_server

When a connection is using TLS it’s often useful to try connecting to the server and see what certificate it presents, algorithms it negotiates, and so forth. OpenSSL offers two useful subcommands which can help with this: s_client for connecting as a client, and s_server for listening to connections.

For example, using s_client to connect to google.com on the standard HTTPS port shows us details about the server cert and its verification status:

$ openssl s_client -connect google.com:443
CONNECTED(00000003)
depth=2 OU = GlobalSign Root CA - R2, O = GlobalSign, CN = GlobalSign
verify return:1
depth=1 C = US, O = Google Trust Services, CN = Google Internet Authority G3
verify return:1
depth=0 C = US, ST = California, L = Mountain View, O = Google LLC, CN = *.google.com
verify return:1
---
Certificate chain
 0 s:C = US, ST = California, L = Mountain View, O = Google LLC, CN = *.google.com
   i:C = US, O = Google Trust Services, CN = Google Internet Authority G3
 1 s:C = US, O = Google Trust Services, CN = Google Internet Authority G3
   i:OU = GlobalSign Root CA - R2, O = GlobalSign, CN = GlobalSign
---
# ...

Whereas connecting to my webserver and providing an unknown host in the SNI field results in an SSL alert 112 (“The server name sent was not recognized”) and no server certificate is sent:

$ openssl s_client -connect chameth.com:443 -servername example.com
CONNECTED(00000003)
140384831313024:error:14094458:SSL routines:ssl3_read_bytes:tlsv1 unrecognized name:../ssl/record/rec_layer_s3.c:1536:SSL alert number 112
---
no peer certificate available
---
# ...

Often if you hit this kind of alert in an application the exact error will be lost somewhere in the many layers between the SSL library and the logs, so being able to directly connect and test can help diagnose a lot of issues.

Once a connection is established you can read and write plain text and it will be encrypted and decrypted automatically.

Java apps

If a Java app is involved in the connection, you can enable a lot of built-in debugging with a simple JVM property: javax.net.debug. You can tweak what exactly gets logged, but the easiest thing to do is just set the property to all and you’ll see information about certificate chains, verification, and packet dumps:

$ java -Djavax.net.debug=all -jar ....
# ...
found key for : duke
chain [0] = [
[
  Version: V1
  Subject: CN=Duke, OU=Java Software, O="Sun Microsystems, Inc.",
  L=Cupertino, ST=CA, C=US
# ...

More information about Java’s debugging options is available on docs.oracle.com.

Thread and core dumps

Higher-level languages frequently provide an interactive way to dump the current execution state of all of their threads (a “thread dump”). This is useful to spot deadlocks, some types of race conditions, and as a quick and dirty method of investigating hangs or excessive CPU usage.

With both Java and Go applications you can send a QUIT signal to have a thread dump printed out; Go applications will quit after doing so, Java ones will carry on running. At most terminals you can hit Ctrl and \ to send a QUIT signal.

For Java you can also use the jstack tool from the JDK to dump threads by PID; this can be useful if the application is running in the background or has redirected sysout:

$ jstack 8321
Attaching to process ID 8321, please wait...
Debugger attached successfully.
Client compiler detected.

Thread t@5: (state = BLOCKED)
 - java.lang.Object.wait(long) @bci=-1107318896 (Interpreted frame)
 - java.lang.Object.wait(long) @bci=0 (Interpreted frame)
 - java.lang.ref.ReferenceQueue.remove(long) @bci=44, line=116 (Interpreted frame)
 - java.lang.ref.ReferenceQueue.remove() @bci=2, line=132 (Interpreted frame)
 - java.lang.ref.Finalizer$FinalizerThread.run() @bci=3, line=159 (Interpreted frame)

# ...

A core dump provides more complete information about the state of a process, but is often more complex to interpret. The gcore utility from GDB will create a core dump of a process with a given PID. You can then generally load the core file using your normal debugger, depending on the language in question.

System calls

strace is the swiss army knife for seeing what a process is doing. It details each system call made by a program (you can filter them down, of course). For example:

$ strace -e read curl https://google.com/
read(3, "\177ELF\2\1\1\0\0\0\0\0\0\0\0\0\3\0>\0\1\0\0\0 \236\0\0\0\0\0\0"..., 832) = 832
read(3, "\177ELF\2\1\1\0\0\0\0\0\0\0\0\0\3\0>\0\1\0\0\0P!\0\0\0\0\0\0"..., 832) = 832
read(3, "\177ELF\2\1\1\3\0\0\0\0\0\0\0\0\3\0>\0\1\0\0\0\200l\2\0\0\0\0\0"..., 832) = 832
read(3, "\177ELF\2\1\1\0\0\0\0\0\0\0\0\0\3\0>\0\1\0\0\0\20Q\0\0\0\0\0\0"..., 832) = 832
# ...
read(3, "\0\0\0\0\0\0\0\4\25\345\366\302\273sE6\365wI\225\321|\3435Z\362\216\372\215\251aO"..., 253) = 253
<HTML><HEAD><meta http-equiv="content-type" content="text/html;charset=utf-8">
<TITLE>301 Moved</TITLE></HEAD><BODY>
<H1>301 Moved</H1>
The document has moved
<A HREF="https://www.google.com/">here</A>.
</BODY></HTML>
read(3, "\27\3\3\0!", 5)                = 5
# ...

Brendan Gregg has a nice guide on strace and alternatives.

… with docker

When the application is running in docker you can usually just strace it from the host with the correct PID (from e.g. docker inspect --format '{{.State.Pid}}' my_container). Sometimes you may need to trace the startup of an application though, which is a bit trickier. Instead you can run a new container using the same PID namespace as your target, and the permissions needed to strace:

$ docker run --rm -it --pid=container:my_container \
  --net=container:my_container \
  --cap-add sys_admin \
  --cap-add sys_ptrace \
  alpine

From within the new container you can install strace, and trace any running program within the target container using strace -p as normal. To start a new program you need access to the target container’s filesystem, which you can get to via /proc/1/root (PID 1 being the main process that docker started in the target container).

Files

Sometimes the problem might relate to file access. There are a couple of straight forward — but nonetheless useful — tools which might help here. inotifywait uses the Linux inotify subsystem to watch files or directories for operations. For example:

$ inotifywait -mr site/content
Setting up watches.  Beware: since -r was given, this may take a while!
Watches established.
site/content/post/ MODIFY 2019-05-08-debugging-beyond-the-debugger.md
site/content/post/ OPEN 2019-05-08-debugging-beyond-the-debugger.md
site/content/post/ MODIFY 2019-05-08-debugging-beyond-the-debugger.md
site/content/post/ MODIFY 2019-05-08-debugging-beyond-the-debugger.md
site/content/post/ CLOSE_WRITE,CLOSE 2019-05-08-debugging-beyond-the-debugger.md
# ...

Here the -m switch makes inotifywait monitor the files forever (instead of exiting on the first modification, which is the normal behaviour) and r makes it recurse into the directory and monitor each file and subdirectory in there.

If you want to see what processes currently have a file open, fuser is the go-to tool. For example:

$ fuser -v /
                     USER PID ACCESS COMMAND
/:                   root     kernel mount /
                     chris      2961 .rc.. systemd
                     chris      2986 .r... gdm-x-session
                     chris      2994 .r... dbus-daemon
                     chris      3001 .r... gnome-session-b
# ...

Honourable mentions

These aren’t really debugging tools, but I feel it’s worth mentioning as they often feature somewhere along the debugging-of-weird-problems journey.

I’ve seen some weird and wonderful problems happen because a disk is full, so a quick df early on in the debugging process never hurts. Some apps may hang, some may corrupt their config, some may fall over and die; sometimes the manner in which they fail doesn’t obviously point to a disk space issue.

Another issue that comes up now and then — especially inside VMs or other environment that don’t have a decent amount of “noise” happening — is entropy exhaustion. A quick look at /proc/sys/kernel/random/entropy_avail should be enough to confirm that everything is ticking along nicely. If it’s exceedingly low then you may find that anything involving random number generation stalls (TLS connections for example).