Compile error when compiling tables.c C_0.99.15 release

[mawassw]

Hi all!
I am using the C API of tskit, specifically employing the tables functions. I am trying to compile tables.c but I am getting an error on compilation. I am using the 0.99.15 release. Here is a capture of what I am getting:
[wmawass@fusion tskit]$ gcc -I/home/wmawass/tskit/c -I/home/wmawass/kastore/c -c tables.c
tables.c: In function ‘tsk_table_sorter_sort_edges’:
tables.c:5937:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘node_time’
const double *restrict node_time = self->tables->nodes.time;
^
tables.c:5937:28: error: ‘node_time’ undeclared (first use in this function)
tables.c:5937:28: note: each undeclared identifier is reported only once for each function it appears in
tables.c: In function ‘tsk_ibd_finder_init_samples_from_nodes’:
tables.c:7726:33: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘flags’
const tsk_flags_t *restrict flags = self->tables->nodes.flags;
^
tables.c:7726:33: error: ‘flags’ undeclared (first use in this function)
tables.c: In function ‘tsk_table_collection_check_tree_integrity’:
tables.c:9732:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘site_position’
const double *restrict site_position = self->sites.position;
^
tables.c:9732:28: error: ‘site_position’ undeclared (first use in this function)
tables.c:9733:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘mutation_site’
const tsk_id_t *restrict mutation_site = self->mutations.site;
^
tables.c:9733:30: error: ‘mutation_site’ undeclared (first use in this function)
tables.c:9734:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘mutation_node’
const tsk_id_t *restrict mutation_node = self->mutations.node;
^
tables.c:9734:30: error: ‘mutation_node’ undeclared (first use in this function)
tables.c:9735:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘mutation_time’
const double *restrict mutation_time = self->mutations.time;
^
tables.c:9735:28: error: ‘mutation_time’ undeclared (first use in this function)
tables.c:9736:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘node_time’
const double *restrict node_time = self->nodes.time;
^
tables.c:9736:28: error: ‘node_time’ undeclared (first use in this function)
tables.c:9737:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘I’
const tsk_id_t *restrict I = self->indexes.edge_insertion_order;
^
tables.c:9737:30: error: ‘I’ undeclared (first use in this function)
tables.c:9738:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘O’
const tsk_id_t *restrict O = self->indexes.edge_removal_order;
^
tables.c:9738:30: error: ‘O’ undeclared (first use in this function)
tables.c:9739:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘edge_right’
const double *restrict edge_right = self->edges.right;
^
tables.c:9739:28: error: ‘edge_right’ undeclared (first use in this function)
tables.c:9740:28: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘edge_left’
const double *restrict edge_left = self->edges.left;
^
tables.c:9740:28: error: ‘edge_left’ undeclared (first use in this function)
tables.c:9741:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘edge_child’
const tsk_id_t *restrict edge_child = self->edges.child;
^
tables.c:9741:30: error: ‘edge_child’ undeclared (first use in this function)
tables.c:9742:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘edge_parent’
const tsk_id_t *restrict edge_parent = self->edges.parent;
^
tables.c:9742:30: error: ‘edge_parent’ undeclared (first use in this function)
tables.c:9743:24: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘parent’
tsk_id_t *restrict parent = NULL;
^
tables.c:9743:24: error: ‘parent’ undeclared (first use in this function)
tables.c: In function ‘tsk_table_collection_compute_mutation_times’:
tables.c:11261:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘I’
const tsk_id_t *restrict I = self->indexes.edge_insertion_order;
^
tables.c:11261:30: error: ‘I’ undeclared (first use in this function)
tables.c:11262:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘O’
const tsk_id_t *restrict O = self->indexes.edge_removal_order;
^
tables.c:11262:30: error: ‘O’ undeclared (first use in this function)

I would appreciate any help with this thank you!

[jeromekelleher]

Hi @mawassw 👋

I suspect you need to tell gcc that this is c99, try using -std=c99.

If this doesn't work, can you give us more info about your gcc version, platform etc?

[mawassw]

Thank you Jerome! it worked!