The complaints spurred the Pentagon’s inspector general to open an investigation into the alleged manipulation of intelligence. The fact that so many people complained suggests there are deep-rooted, systemic problems in how the U.S. military command charged with the war against the self-proclaimed Islamic State assesses intelligence.

“The cancer was within the senior level of the intelligence command,” one defense official said.

Two senior analysts at CENTCOM signed a written complaint sent to the Defense Department inspector general in July alleging that the reports, some of which were briefed to President Obama, portrayed the terror groups as weaker than the analysts believe they are. The reports were changed by CENTCOM higher-ups to adhere to the administration’s public line that the U.S. is winning the battle against ISIS and al Nusra, al Qaeda’s branch in Syria, the analysts claim.

That complaint was supported by 50 other analysts, some of whom have complained about politicizing of intelligence reports for months. That’s according to 11 individuals who are knowledgeable about the details of the report and who spoke to The Daily Beast on condition of anonymity.